Sequence
atgc intronic sequence ATGC exonic sequencegttccgtattttccaatgcttaggattttaatttgggattgtggagaatcattaaattgaatattaacttgacaattgtatgaaatatcataatgcagCTTGGGGCTTTTTTAGCTGGAGCAATTTTAGCAGAGACAAACTTCAGGACCCAGATTGAAGCTGACATAAGACCATTTAGAGGATTGCTTCTTGGGTTGT
Basic information
species | Glycine max |
transcript | GLYMA08G06890.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G06890.3 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os12g42300.1 (Oryza sativa), 3'ss of exon 9
gttccgtattttccaatgcttaggattttaatttgggattgtggagaatcattaaattgaatattaacttgacaattgtatgaaatatcataatgcagCTTGGGGCTTTTTTAGCTGGAGCAATTTTAGCAGAGACAAACTTCAGGACCCAGATTGAAGCTGACATAAGACCATTTAGAGGATTGCTTCTTGGGTTGT
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-gtacgt-cattaaaacattttgaagtgatagtcacgttta--gtttatgattttcctgtctttctgatgtgctcttgttaaacatat----gtgtagTTAGGTGCATTTCTGGCTGGGGCCATTCTTGCAGAGACAAATTTCCGTACCCAAATTGAAGCTGACATAAGGCCATTCAGAGGTTTGCTGCTTGGGTTGT
upper sequence: GLYMA08G06890.3 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G009715_T01 (Zea mays), 3'ss of exon 9
gttccgtattttccaatgcttaggattttaatt----tgggattgtggagaatcattaaattgaatattaacttgacaattgtatgaaatatcataatgcagCTTGGGGCTTTTTTAGCTGGAGCAATTTTAGCAGAGACAAACTTCAGGACCCAGATTGAAGCTGACATAAGACCATTTAGAGGATTGCTTCTTGGGTTGT
|||| ||| | | | | |||| | || ||||||| | | | ||| || | ||| | ||| || ||| || | || || ||| | |||||||| ||| | ||||| ||||| ||| |||| || ||||||||||||||||| ||||| || || ||| | |||||| |||
-----gtatgttctatt--tgaaaatttcagttatatccagattgtgctcttttagttttttggatttatgattgtttacctcctgacatcattctatgtagTTGGGTGCATTTCTGGCTGGAGCCATTCTTGCAGAAACAAATTTCCGGACACAAATTGAAGCTGACATAAGGCCATTCAGGGGCTTGTTGCTTGGGCTGT
upper sequence: GLYMA08G06890.3 (Glycine max), 3'ss of exon 10
lower sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 10
gttccgtattttccaatgcttaggattttaatttgggattgtggagaatcattaaattgaatattaacttgacaattgta-tgaaatatcataatgcagCTTGGGGCTTTTTTAGCTGGAGCAATTTTAGCAGAGACAAACTTCAGGACCCAGATTGAAGCTGACATAAGACCATTTAGAGGATTGCTTCTTGGGTTGT
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------------------gttagaattaacacccctacaaaaatataatttccatctaatatccttactttaatgtcctaactcaattttactctgaagCTTGGAGCTTTTCTTGCTGGAGCACTTCTAGCAGAAACAAATTTCCGAACACAAATTGAAGCTGATATTAGGCCATTTAGAGGTTTACTTCTCGGTTTGT
upper sequence: GLYMA08G06890.3 (Glycine max), 3'ss of exon 10
lower sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 10
gttccgtattttccaatgcttaggattttaatttgggattgtggagaatcattaaattgaatattaacttgacaattgtatgaaatatcataatgcagCTTGGGGCTTTTTTAGCTGGAGCAATTTTAGCAGAGACAAACTTCAGGACCCAGATTGAAGCTGACATAAGACCATTTAGAGGATTGCTTCTTGGGTTGT
|| | || || ||| | | | | | | | || || || | | | || | || | || |||||||||| || ||||| ||||| ||| | |||||||| ||||| ||| | || ||||||||||| || ||||| ||||||||||| || ||||||||||| |
-----gtttgttatcttgtttaaaagat-------aaagtatccaagtttgacaattttcgggtttaggccattactgactttgatcttattgtgcagCTTGGAGCATTTTTGGCTGGGGCACTATTAGCAGAAACAAATTTCCGAACACAGATTGAAGCAGATATAAGGCCATTTAGAGGCTTACTTCTTGGGTTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagaatcattaaattgaatattaacttgacaattgtatgaaatatcataatgcagCTTGGGGCTTTTTTAGCTGGAGCAATTTTAGCAGAGACAAACTTCAGGACCCAGATTGAAGCTGACATAAGACCATTTAGAGGATTGCTTCTTGGGTTGT
attaaattgaatatta TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttccgtattttccaatgcttaggattttaatttgggattgtggagaatcattaaattgaatattaacttgacaattgtatgaaatatcataatgcagCTTGGGGCTTTTTTAGCTGGAGCAATTTTAGCAGAGACAAACTTCAGGACCCAGATTGAAGCTGACATAAGACCATTTAGAGGATTGCTTCTTGGGTTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT