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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatctatattttcaacaatgtgaagaagatgccaaactgtcccattgtttctcaccacatttatcctatattcttggtttgaagatgttagacttcacttactgttatgaaattgtcaatgggttggcaaagctgttgattcttttctttatgctgtcaggactaataatccttctgcgttctttttatgacagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGGATGCGTGTTGG

Basic information

species Glycine max
transcript GLYMA19G45140.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G45140.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g54340.2 (Oryza sativa), 3'ss of exon 4
gtaatctatattttcaacaatgtgaagaagatgccaaactgtcccattgtttctcaccacatttatcctatattcttggtttgaagatgttagacttcacttactgttatgaaattgtcaatgggttggcaaagctgttgattcttttctttatgctgtcaggactaataatccttctgcgttctttttatgacagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGGATGCGTGTTGG
                                                                              || |    ||| |   |     ||| ||  |  | ||  |  |||       |||  ||||||| | |||||  || ||||               || ||  |  ||       |||||||| ||||| || || ||||||||||| || || |||||||||||||||||| | || ||
------------------------------------------------------------------------------gtattcc-atgcttatccaattttattgaaaccatatctttcatgaa--aaaaaatgtgttgatccctttctc-atactgta--------------ttttgtatcatt-------cagTTTGTGGTTGGCCTAGGGGATAAAGTTTCTCCAACTGACATTGAGGAAGGGATGAGAGTGGG

upper sequence: GLYMA19G45140.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G181359_T01 (Zea mays), 3'ss of exon 4
gtaatctatattttcaacaatgtgaagaagatgccaaactgtcccattgtttctcaccacatttatcctatattcttggtttgaagatgttagacttcacttactgttatgaaattgtcaatgggttggcaaagctgttgattcttttct----ttatgctgtc-aggactaataatccttctgcgttctttttatga------cagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGGATGCGTGTTGG
                                                                                                                            ||  || | |||  ||    ||||||    | ||||   | || | |  |    ||| |     ||| | ||||      |||||||| ||||| ||||| |||||||| || || || ||||| |||||||||||| | || ||
----------------------------------------------------------------------------------------------------------------------------gtatgccatgctcgtgtcatttttctcatctcatgccacctagaatttgtgcagctttttatgccttgtaatgaatcctgcagTTTGTTGTTGGACTGGGGGATAAAGTGTCTCCAACTGACATCGAGGAAGGGATGAGGGTCGG

upper sequence: GLYMA19G45140.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0002g00170.t01 (Vitis vinifera), 3'ss of exon 4
gtaatctatattttcaacaatgtgaagaagatgccaaactgtcccattgtttctcaccacatttatcctatattcttggtttgaagatgttagacttcacttactgttatgaaattgtcaatgggttggcaaagctgttgattcttttctttatgctgtcaggactaataatccttctgcgttctttttatgacagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGGATGCGTGTTGG
                                                                                      || | |      |||  | |   | ||||| ||| | | | |    ||   | ||| |    ||  | ||  |||   ||||| ||  |   |          ||  |||||||| |||||||||||||| |||||||| || || || || || ||||| |||||||||||
------------------------------------------------------------------------------------gcatatgatttgaaactagcagaagtcaaattttcatttgttggatttagtcatagatacaaaactgcaagc-atcatt-ctaattatgttgacg----------attgcagTTTGTTGTTGGGCTGGGTGACAAAGTTTCTCCAACTGATATAGAAGAAGGCATGCGTGTTGG

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|151411562|gb|EV281373.1|EV281373
EST:     CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
genomic: CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAGgtaatctata ... tttatgacagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
EST: gi|207714809|gb|GD695027.1|GD695027
EST:     CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
genomic: CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAGgtaatctata ... tttatgacagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
EST: gi|254338828|gb|GR847545.1|GR847545
EST:     CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
genomic: CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAGgtaatctata ... tttatgacagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
EST: gi|151410157|gb|EV279965.1|EV279965
EST:     CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
genomic: CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAGgtaatctata ... tttatgacagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
EST: gi|151406841|gb|EV276656.1|EV276656
EST:     CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
genomic: CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAGgtaatctata ... tttatgacagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
EST: gi|254320308|gb|GR831116.1|GR831116
EST:     CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
genomic: CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAGgtaatctata ... tttatgacagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
EST: gi|208225841|gb|GE021038.1|GE021038
EST:     CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
genomic: CAAATTCAGAAGATGCCAAATATGTTATCAATGTGAAGCAGATTGCAAAGgtaatctata ... tttatgacagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGG
EST: gi|207819475|gb|GD791215.1|GD791215
EST:     AATGTGAAGCAGATTGTCTTAAAGT                         TTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGG
genomic: AATGTGAAGCAGATTG-C--AAAG-gtaatctata ... tttatgacagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGG
EST: gi|207819475|gb|GD791215.1|GD791215
EST:     AATGTGAAGCAGATTGTCTTAAAGT                         TTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGG
genomic: AATGTGAAGCAGATTG-C--AAAG-gtaatctata ... tttatgacagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttttctttatgctgtcaggactaataatccttctgcgttctttttatgacagTTTGTCGTTGGGCTGGGTGATAAAGTTTCACCTACCGACATTGAGGAAGGGATGCGTGTTGG
                     gactaat  putative branch site (score: 2)
                              tccttctgcgttcttt  putative PPT
                                        ttctttttat  TA-rich tract