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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttttttttttttttttctacatagccacctgattgattttctttcagcactaggattttcatgttgttggctcattttttttcttaatggattgatgttgctaaatgcaaaaagatttttcttcattgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACTC

Basic information

species Glycine max
transcript GLYMA09G28440.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G28440.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g41750.1 (Oryza sativa), 3'ss of exon 5
gtttgttttttttttttttttctacatagccacctgattgattttctttcagcactaggattttcatgttgttggctcattttttttcttaatggattgatgttgctaaatgcaaaaagatttttcttcattgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACTC
                                         |||      |  |        ||    |     | |  | | |  |  | || | ||||  ||  |   |   | ||| |  |||||  || ||    ||||||| || ||||| ||||| ||||| ||||||||||||||||| || || || || || || |  |||||  | || |||||||| || |||||  | |
----------------------------------------gtttgtacataaaatccatccgtttgaataaaatgttgctgtctccttgtgatagcttgaatttttt---tcttagaagctgcttctt-gttttc----agGGTGTGCTGGGTATTAAGGTCAAGATTATGCTTGATTGGGATCCGAAGGGCAAGCAAGGACCAATGACTCCTTTACCGGATCTTGTTACCATCCATGCCC

upper sequence: GLYMA09G28440.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G093902_T02 (Zea mays), 3'ss of exon 5
gtttgttttttttttttttttctacatagccacctgattgattttctttcagcactaggattttcatgttgttggctcattttttttcttaatggattgatgttgctaaatgcaaaaagatttttcttcattgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACTC
                                               ||  |  || ||  |   ||||| |    | ||         |||   | |   | || ||        || | | |  || | |   ||  ||||||| |||||||||||||||||||| ||||| || |||||||| || || || || || || |  |  ||  | |||||| | || || || |||   |
----------------------------------------------gtttggtgcttggtatcagatgttatcttattatgcaaacatataacaaaata--gctgttagt------aatactctagttgacttggcttcagGGTGTGCTTGGTATCAAGGTTAAGATTATGCTGGACTGGGATCCAAAGGGCAAGCAAGGGCCAACCATGCCTTTACCTGATTTGGTTACAATTCACGTGC

upper sequence: GLYMA09G28440.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G35530.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttgttttttttttttttttctacatagccacctgattgattttctttcagcactaggattttcatgttgttggctcattttttttcttaatggattgatgttgctaaatgcaaaaagatttttcttcattgtcc-tatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACTC
                                         |    | |   || | | |   |  |  | |||  |||  || |  || | ||    ||| |||     || ||   || | |  || ||      |  ||||||| |||||| ||||||| |||||||||||||| ||||| || || || ||||| || || |  || ||  | |||||| |||| |  ||||| || |
----------------------------------------gtcagttcttcacagtggaaacctgtt--tcttgaatcacattctacct-agtga---gatcttg-----tgtaacctgaatctggttaatcacatgtgcagGGTGTGCTTGGTCTCAAGGTGAAGATCATGCTTGACTGGGACCCCAAGGGCAAACAAGGACCGATGACACCATTGCCTGATGTTGTGATCATCCATACAC

upper sequence: GLYMA09G28440.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0016g01380.t01 (Vitis vinifera), 3'ss of exon 5
gtttgttttttttttttttttctacatagcc-acctgattgattttctttcagcactaggattttca--tgttgt--tggctcattttttttcttaa-tggattgatgttgctaaatgcaaaaagattt---ttcttcattgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACTC
           |||  ||     ||  ||   | ||| |     ||||||  |   ||  ||  |||    |||   ||| ||||    || ||||  |  ||||   |||     || |  | | | |   ||  |     ||  | ||||||| |||||||||||||| ||||||||||||||||||||||| || || || || || || ||||| || || |||||||||||||| ||||||||||
----------gtttgcttcactcacccagttgatctgttcatgcttctttttg--ttaacatcctcaaccattgcggtggttcatacggttgcttaccttcattgcaattgtgtcctg-atcatgttctggattgcttgccatcaaacagGGTGTACTTGGTATCAAGGTCAAGATCATGCTTGATTGGGATCCCAAGGGAAAGCAAGGCCCCAAAACGCCTCTCCCTGATCTTGTCACCATCCACACTC

upper sequence: GLYMA09G28440.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S29_222V6.1 (Physcomitrella patens), 3'ss of exon 5
-------------------------gtttgttttttttttttttttctacatagccacctgattgattttctttcagcactaggattttcatgttgttggctcattttttttcttaatggattgatgttgctaaatgcaaaaagatttttcttcattgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACTC
                          | |||||  |  |  || | |   ||        ||||| ||   |    ||| ||   |    |  |   |   | |  |||    ||| |   |||    | || |     ||  ||   |  | | |   | |  |||| ||  | ||||||||||| ||||||||||| || |||||||| ||||| ||||| || || |  ||||| || || ||| | || || |||||||  |
gtattaacagatttttttgatacccctatgtttactcctccttgtgcagaattaatcttcgattgtttccatccttgcattatactaaatagttctataattgaggtttca--ttattccgttggctctactgagcctgaattgaagctattcctt---cttgcagGGAGTGTTGGGTATCAAGGTCAAGATCATGCTCGACTGGGATCCCAAAGGCAAACAAGGACCCATGACTCCACTCCCAGATGTGGTTACCATCCACATGC

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|120496476|gb|EH224643.1|EH224643
EST:     GGATTACATTGAACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: GGATTACATTG-ACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|31474805|gb|CD416833.1|CD416833
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|21594357|gb|BQ610135.1|BQ610135
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|5677916|gb|AI939046.1|AI939046
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTACTTGCTATCAACGTTAAGATCATGCTT
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTT
EST: gi|120494880|gb|EH223047.1|EH223047
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|24205365|gb|BU964618.1|BU964618
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|15813645|gb|BI785920.1|BI785920
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|120496212|gb|EH224379.1|EH224379
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|254325495|gb|GR838376.1|GR838376
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGG
EST: gi|8286276|gb|BE023835.1|BE023835
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|31475508|gb|CD417536.1|CD417536
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|6666600|gb|AW278059.1|AW278059
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|31305814|gb|CD391017.1|CD391017
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|11414198|gb|BF426209.1|BF426209
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|31561125|gb|CD486963.1|CD486963
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|192305912|gb|FG995462.1|FG995462
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|120496331|gb|EH224498.1|EH224498
EST:     CTGTCAACGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTACGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|151406004|gb|EV275819.1|EV275819
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGG-TGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGG
EST: gi|192305913|gb|FG995463.1|FG995463
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|193714803|gb|FK652770.1|FK652770
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|10843496|gb|BF067184.1|BF067184
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|16105559|gb|BI893299.1|BI893299
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|17153034|gb|BM142967.1|BM142967
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|151409012|gb|EV278820.1|EV278820
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTAT
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTAT
EST: gi|15813712|gb|BI785987.1|BI785987
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|9564213|gb|BE473722.1|BE473722
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTAT
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTAT
EST: gi|31472170|gb|CD414198.1|CD414198
EST:     CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CTGTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|214008211|gb|DB988542.1|DB988542
EST:     GTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: GTCAAGGATTACATTGACTCAGCAGTGAGACATGTGCTACTAAGACAGgtttgttttt ... tgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttaatggattgatgttgctaaatgcaaaaagatttttcttcattgtcctatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACTC
                 tgctaaa  putative branch site (score: 2)
                                  tttttcttcattgtcc  putative PPT
                           aaaaagatttttctt  TA-rich tract