BLAST2 result
TBLASTN 2.2.2 [Dec-14-2001]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= AC140068.13 + phase: 0
(233 letters)
Database: LJGI
28,460 sequences; 14,692,800 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
TC10264 similar to UP|Q41498 (Q41498) U1snRNP-specific protein, ... 271 5e-74
TC12184 similar to UP|Q41499 (Q41499) Spliceosomal protein, part... 180 2e-46
TC13677 similar to UP|Q8H0P8 (Q8H0P8) RNA-binding protein, parti... 46 6e-06
TC11685 homologue to UP|PM14_ARATH (Q9FMP4) Pre-mRNA branch site... 44 3e-05
AV768549 42 9e-05
TC14336 similar to UP|Q9M549 (Q9M549) Poly(A)-binding protein, p... 41 2e-04
TC15886 41 2e-04
TC17984 similar to UP|Q8H0P8 (Q8H0P8) RNA-binding protein, parti... 39 6e-04
TC10777 similar to UP|Q9SCL3 (Q9SCL3) Pre-mRNA splicing factor S... 38 0.002
TC12657 36 0.005
TC13693 similar to PIR|T00933|T00933 RNA-binding protein homolog... 36 0.005
BP084941 36 0.007
TC12924 similar to UP|Q9LIC8 (Q9LIC8) Emb|CAA64867.1, partial (28%) 35 0.009
TC10903 similar to UP|Q8H0P8 (Q8H0P8) RNA-binding protein, parti... 34 0.019
BP049555 34 0.025
BP036697 34 0.025
TC11095 similar to PIR|T05112|T05112 splicing factor 9G8-like SR... 33 0.055
TC17486 similar to UP|RU17_ARATH (Q42404) U1 small nuclear ribon... 33 0.055
TC11829 weakly similar to UP|NAM8_YEAST (Q00539) NAM8 protein, p... 33 0.055
TC19344 weakly similar to GB|AAA34838.1|172092|YSCPABPG polyaden... 32 0.12
>TC10264 similar to UP|Q41498 (Q41498) U1snRNP-specific protein, U1A,
partial (92%)
Length = 962
Score = 271 bits (694), Expect = 5e-74
Identities = 138/235 (58%), Positives = 177/235 (74%), Gaps = 6/235 (2%)
Frame = +2
Query: 5 DIPPNQTIYIKNLNEKIKKDELKRSLYCLFSQYGRILDIIALKTPKLRGQAWVCFSEVTA 64
+ P N TIYI NLNEKIK +ELK+SL+ +FSQ+G+IL++ A KT K +GQAWV F ++++
Sbjct: 47 ETPQNNTIYINNLNEKIKIEELKKSLHAVFSQFGKILEVFAAKTLKHKGQAWVVFEDLSS 226
Query: 65 ASNAVRQMQNFPFYEKPMRIQYAKTKSDCIAKEEGSFVPREKKKKQEEKAEKKKYADESK 124
ASNA+RQMQ FPFY+KPMRIQYAK KSD IAK +G+FVPREK+K+ E+K KK+ +
Sbjct: 227 ASNALRQMQGFPFYDKPMRIQYAKAKSDIIAKADGTFVPREKRKRHEDKGNKKR--KDQN 400
Query: 125 QSAVPNGGTHGASNGGSTASFRPGSGA------QEAAAPNNILFIENLPYETTGRMLEML 178
+ + G + A G A+ P G + A PNNILFI+NLP ETT ML+ML
Sbjct: 401 DANLAGMGLNPAYPGAYGATPIPYPGGLKSMVPEAPAPPNNILFIQNLPNETTPMMLQML 580
Query: 179 FEQYPGFKEVRLIEAKPGIAFVDFEDDGQSSMAMQALQGFKITPQNPMIINFAKK 233
F QYPGFKEVR++E KPGIAFV++ D+ QS++AMQALQGFKITPQNPM+I +AKK
Sbjct: 581 FLQYPGFKEVRMVETKPGIAFVEYGDEMQSTVAMQALQGFKITPQNPMLITYAKK 745
>TC12184 similar to UP|Q41499 (Q41499) Spliceosomal protein, partial (39%)
Length = 347
Score = 180 bits (456), Expect = 2e-46
Identities = 85/91 (93%), Positives = 90/91 (98%)
Frame = +2
Query: 1 MLSGDIPPNQTIYIKNLNEKIKKDELKRSLYCLFSQYGRILDIIALKTPKLRGQAWVCFS 60
MLSGDIPP+QTIYIKNLNEK+KKDELKRSLYCLFSQYGRILD++ALKTPKLRGQAWVCFS
Sbjct: 74 MLSGDIPPSQTIYIKNLNEKVKKDELKRSLYCLFSQYGRILDVVALKTPKLRGQAWVCFS 253
Query: 61 EVTAASNAVRQMQNFPFYEKPMRIQYAKTKS 91
EV +ASNAVRQMQNFPFYEKPMRIQYAKTKS
Sbjct: 254 EVPSASNAVRQMQNFPFYEKPMRIQYAKTKS 346
>TC13677 similar to UP|Q8H0P8 (Q8H0P8) RNA-binding protein, partial (41%)
Length = 577
Score = 45.8 bits (107), Expect = 6e-06
Identities = 23/73 (31%), Positives = 41/73 (55%), Gaps = 8/73 (10%)
Frame = +2
Query: 161 LFIENLPYETTGRMLEMLFEQYPGFKEVRLIEAKPG--------IAFVDFEDDGQSSMAM 212
L++E LP + T R + +F + G++EVRL+ + + FVDF + ++ A+
Sbjct: 44 LYVEGLPSDCTKREVAHIFRPFVGYREVRLVTKESKHRGGDPLILCFVDFANPACAATAL 223
Query: 213 QALQGFKITPQNP 225
ALQG+K+ +P
Sbjct: 224 SALQGYKVDELSP 262
>TC11685 homologue to UP|PM14_ARATH (Q9FMP4) Pre-mRNA branch site p14-like
protein, complete
Length = 558
Score = 43.5 bits (101), Expect = 3e-05
Identities = 29/107 (27%), Positives = 53/107 (49%), Gaps = 2/107 (1%)
Frame = +1
Query: 126 SAVPNGGTHGASNGGSTASFRPGSGAQEAAAPNNILFIENLPYETTGRMLEMLFEQYPGF 185
SA N T A+ +T S R G+ + N +L++ NLP+ T + +F +Y
Sbjct: 7 SAFANPNTTAAAM--ATISLRKGN-TRLPPEVNRVLYVRNLPFNITSEEMYDIFGKYGAI 177
Query: 186 KEVRLIEAKP--GIAFVDFEDDGQSSMAMQALQGFKITPQNPMIINF 230
+++R+ K G AFV +ED + A+ L GF + + +++ +
Sbjct: 178 RQIRIGTTKDTRGTAFVVYEDIYDAKTAVDHLSGFNVANRYLIVLYY 318
>AV768549
Length = 295
Score = 42.0 bits (97), Expect = 9e-05
Identities = 19/20 (95%), Positives = 19/20 (95%)
Frame = -3
Query: 214 ALQGFKITPQNPMIINFAKK 233
ALQGFKITPQNPMII FAKK
Sbjct: 293 ALQGFKITPQNPMIITFAKK 234
>TC14336 similar to UP|Q9M549 (Q9M549) Poly(A)-binding protein, partial
(85%)
Length = 1917
Score = 41.2 bits (95), Expect = 2e-04
Identities = 45/228 (19%), Positives = 86/228 (36%), Gaps = 6/228 (2%)
Frame = +2
Query: 12 IYIKNLNEKIKKDELKRSLYCLFSQYGRILDIIALK--TPKLRGQAWVCFSEVTAASNAV 69
+++KNL+E DELK +F ++G I + ++ K + +V F A+ AV
Sbjct: 371 VFVKNLSESTTDDELKN----VFGEFGTITSAVVMRDGDGKSKCFGFVNFENADDAARAV 538
Query: 70 RQMQNFPFYEKPMRIQYAKTKSDCIAKEEGSFVPREKKKKQEEKAEKKKYADESKQSAVP 129
+ +K +V + +KK + E+ K K+ K++A
Sbjct: 539 ESLNGKKVDDKEW------------------YVGKAQKKSEREQELKNKFEQSMKEAADK 664
Query: 130 NGGTHGASNGGSTASFRPGSGAQEAAAPNNILFIENLPYETTGRMLEMLFEQYPGFKEVR 189
G + L+++NL L+ LF Y +
Sbjct: 665 YQGAN--------------------------LYVKNLDDSIADEKLKELFSSYGTITSCK 766
Query: 190 LIEAKPGIA----FVDFEDDGQSSMAMQALQGFKITPQNPMIINFAKK 233
++ GI+ FV F ++S A+ + G K+ P+ + A++
Sbjct: 767 VMRDPNGISRGSGFVAFSTPEEASRALLEMNG-KMVVSKPLYVTLAQR 907
>TC15886
Length = 615
Score = 40.8 bits (94), Expect = 2e-04
Identities = 22/58 (37%), Positives = 34/58 (57%), Gaps = 1/58 (1%)
Frame = +3
Query: 161 LFIENLPYETTGRMLEMLFEQYPGFKEVRLIEAKPG-IAFVDFEDDGQSSMAMQALQG 217
LF+ NL + L +F +YPGF ++++ +AFVDF+D G S+ A+ LQG
Sbjct: 9 LFVANLGPSCNEQELIQVFSRYPGFLKLKMQSTYGAPVAFVDFQDVGSSADALNNLQG 182
>TC17984 similar to UP|Q8H0P8 (Q8H0P8) RNA-binding protein, partial (11%)
Length = 538
Score = 39.3 bits (90), Expect = 6e-04
Identities = 15/44 (34%), Positives = 29/44 (65%)
Frame = +3
Query: 152 QEAAAPNNILFIENLPYETTGRMLEMLFEQYPGFKEVRLIEAKP 195
+E A +N+LF++ LP + T R + LF + G+K++R++ +P
Sbjct: 399 REGLADSNVLFVDGLPRDCTRREVGHLFRPFIGYKDIRVVHKEP 530
>TC10777 similar to UP|Q9SCL3 (Q9SCL3) Pre-mRNA splicing factor SF2-like
protein, partial (46%)
Length = 597
Score = 37.7 bits (86), Expect = 0.002
Identities = 24/79 (30%), Positives = 41/79 (51%)
Frame = +1
Query: 9 NQTIYIKNLNEKIKKDELKRSLYCLFSQYGRILDIIALKTPKLRGQAWVCFSEVTAASNA 68
++TIY+ NL I++ E++ +F +YGRILDI P+ +V F A +A
Sbjct: 253 SRTIYVGNLPGDIRESEIED----IFYKYGRILDIELKVPPRPPCYCFVEFDNARDAEDA 420
Query: 69 VRQMQNFPFYEKPMRIQYA 87
+R + F +R++ A
Sbjct: 421 IRGRDGYNFDGCRLRVELA 477
>TC12657
Length = 349
Score = 36.2 bits (82), Expect = 0.005
Identities = 16/17 (94%), Positives = 16/17 (94%)
Frame = +1
Query: 217 GFKITPQNPMIINFAKK 233
GFKITPQNPMII FAKK
Sbjct: 1 GFKITPQNPMIIPFAKK 51
>TC13693 similar to PIR|T00933|T00933 RNA-binding protein homolog At2g42240
- Arabidopsis thaliana {Arabidopsis thaliana;}, partial
(53%)
Length = 662
Score = 36.2 bits (82), Expect = 0.005
Identities = 23/77 (29%), Positives = 37/77 (47%), Gaps = 5/77 (6%)
Frame = +3
Query: 161 LFIENLPYETTGRMLEMLFEQYPGFKEVRL---IEAKPGIAFVDFEDDGQSSMAMQALQG 217
LF+ LP + R + LF ++PG++ L + AF F + + MAM AL G
Sbjct: 204 LFVAGLPEDVKPREIYNLFREFPGYESSHLRSPTNSSQPFAFAVFMNQQSAVMAMHALNG 383
Query: 218 --FKITPQNPMIINFAK 232
F + + + I+ AK
Sbjct: 384 MVFDLEKNSTLYIDLAK 434
>BP084941
Length = 435
Score = 35.8 bits (81), Expect = 0.007
Identities = 23/71 (32%), Positives = 34/71 (47%)
Frame = -3
Query: 150 GAQEAAAPNNILFIENLPYETTGRMLEMLFEQYPGFKEVRLIEAKPGIAFVDFEDDGQSS 209
G + +P+N L++ NL + T L LF QY V ++ AFV F+ +
Sbjct: 268 GEDSSVSPSNNLWVGNLAPDVTDSDLMDLFAQYGALDSVTCYTSR-SYAFVFFKRVDDAK 92
Query: 210 MAMQALQGFKI 220
A ALQGF +
Sbjct: 91 AAKNALQGFSL 59
>TC12924 similar to UP|Q9LIC8 (Q9LIC8) Emb|CAA64867.1, partial (28%)
Length = 539
Score = 35.4 bits (80), Expect = 0.009
Identities = 25/80 (31%), Positives = 42/80 (52%), Gaps = 4/80 (5%)
Frame = +1
Query: 157 PNNILFIENLPYETTGRMLEMLFEQYPGFKEVRLIEAKPG--IAFVDFEDDGQSSMAMQA 214
P + LFI NL T L+ Y GF V++ ++ G +AF DFE+ Q++ ++
Sbjct: 10 PCSTLFIANLGPNCTEDELKQALSVYTGFNMVQM-RSRGGMPVAFADFEEIDQATKVLEE 186
Query: 215 LQGFKI--TPQNPMIINFAK 232
LQG + + + M I +A+
Sbjct: 187 LQGSSLPSSDRGGMHIEYAR 246
>TC10903 similar to UP|Q8H0P8 (Q8H0P8) RNA-binding protein, partial (28%)
Length = 551
Score = 34.3 bits (77), Expect = 0.019
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 8/52 (15%)
Frame = +2
Query: 182 YPGFKEVRLIEAKPG--------IAFVDFEDDGQSSMAMQALQGFKITPQNP 225
+ G++EVRL+ + + FVDFE+ ++ A+ ALQG+K+ +P
Sbjct: 2 FVGYREVRLVTKESKHRGGDPLILCFVDFENPACAATALSALQGYKVDELDP 157
>BP049555
Length = 555
Score = 33.9 bits (76), Expect = 0.025
Identities = 23/83 (27%), Positives = 40/83 (47%), Gaps = 5/83 (6%)
Frame = +2
Query: 50 KLRGQAWVCFSEVTAA-----SNAVRQMQNFPFYEKPMRIQYAKTKSDCIAKEEGSFVPR 104
KL ++CF ++ S + QM E+P + K++ A+E+ P
Sbjct: 143 KLTSLHFLCFPKIRIVI*YIQSTFLEQMGEEAKQEQPQAEAKPEEKTEEKAEEKAEEKPA 322
Query: 105 EKKKKQEEKAEKKKYADESKQSA 127
++KK+EEK E++K +E K A
Sbjct: 323 AEEKKEEEKPEEEKKEEEPKPPA 391
>BP036697
Length = 578
Score = 33.9 bits (76), Expect = 0.025
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Frame = +3
Query: 161 LFIENLPYETTGRMLEMLFEQYPGFKEV--RLIEAKPGIAFVDFEDDGQSSMAMQALQGF 218
+++ NLP + R +E LF +Y + ++ PG AFV+FED + A++ G+
Sbjct: 102 VYVGNLPGDIREREVEDLFYKYGNITHIDLKVPPRPPGYAFVEFEDTQDAEDAIRGRDGY 281
>TC11095 similar to PIR|T05112|T05112 splicing factor 9G8-like SR protein
RSZp22 [validated] - Arabidopsis thaliana
{Arabidopsis thaliana;}, partial (89%)
Length = 912
Score = 32.7 bits (73), Expect = 0.055
Identities = 17/57 (29%), Positives = 29/57 (50%)
Frame = +1
Query: 161 LFIENLPYETTGRMLEMLFEQYPGFKEVRLIEAKPGIAFVDFEDDGQSSMAMQALQG 217
+++ NL + R LE F + + V + PG AF+DF+D + A++ L G
Sbjct: 94 VYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDRRDAQDAIRELDG 264
>TC17486 similar to UP|RU17_ARATH (Q42404) U1 small nuclear
ribonucleoprotein 70 kDa (U1 snRNP 70 kDa) (snRNP70)
(U1-70K), partial (39%)
Length = 595
Score = 32.7 bits (73), Expect = 0.055
Identities = 16/47 (34%), Positives = 23/47 (48%)
Frame = +3
Query: 145 FRPGSGAQEAAAPNNILFIENLPYETTGRMLEMLFEQYPGFKEVRLI 191
+ P + + P LF+ L YETT ++ FE Y K VRL+
Sbjct: 444 YDPQNDPNVSGDPYKTLFVAKLSYETTESRIKREFESYGPIKRVRLV 584
>TC11829 weakly similar to UP|NAM8_YEAST (Q00539) NAM8 protein, partial (4%)
Length = 738
Score = 32.7 bits (73), Expect = 0.055
Identities = 32/129 (24%), Positives = 54/129 (41%), Gaps = 5/129 (3%)
Frame = +1
Query: 97 EEGSFVPREKKKKQEEKAEKKKYADESKQSAVPNGGTHGASNGGSTASFRPGSGAQEAAA 156
E G VP K+ A + S P +G S GG+ A G+GA +
Sbjct: 46 ELGGTVPESATKQTSTLA----IGSGNSGSNPPWANNNGGSTGGA-AQAGLGAGAVKKEI 210
Query: 157 PNNILFIENLPYETTGRMLEMLFEQYPGFKEVRLIEAK-----PGIAFVDFEDDGQSSMA 211
+ L+I LP L LF+Q+ ++I+ + G FV + D ++ A
Sbjct: 211 DDTNLYIGYLPPTLEDDGLIQLFQQFGEIVMAKVIKDRMTGLSKGYGFVKYADITMANNA 390
Query: 212 MQALQGFKI 220
+ A+ G+++
Sbjct: 391 ILAMNGYRL 417
>TC19344 weakly similar to GB|AAA34838.1|172092|YSCPABPG
polyadenylate-binding protein {Saccharomyces
cerevisiae;} , partial (18%)
Length = 518
Score = 31.6 bits (70), Expect = 0.12
Identities = 21/64 (32%), Positives = 32/64 (49%), Gaps = 2/64 (3%)
Frame = +3
Query: 12 IYIKNLNEKIKKDELKRSLYCLFSQYGRILDIIALKTPK--LRGQAWVCFSEVTAASNAV 69
IY+KN+++ + +EL+ FS G I +K K +G +VCFS A+ AV
Sbjct: 159 IYVKNIDDNVSDEELRGH----FSACGSITYAKVMKDEKGISQGFGFVCFSTPEEANKAV 326
Query: 70 RQMQ 73
Q
Sbjct: 327 NTFQ 338
Database: LJGI
Posted date: Jul 30, 2004 11:16 AM
Number of letters in database: 14,692,800
Number of sequences in database: 28,460
Lambda K H
0.315 0.133 0.377
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,207,515
Number of Sequences: 28460
Number of extensions: 34816
Number of successful extensions: 361
Number of sequences better than 10.0: 64
Number of HSP's better than 10.0 without gapping: 294
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 328
length of query: 233
length of database: 4,897,600
effective HSP length: 87
effective length of query: 146
effective length of database: 2,421,580
effective search space: 353550680
effective search space used: 353550680
frameshift window, decay const: 50, 0.1
T: 13
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 54 (25.4 bits)
Medicago: description of AC140068.13