Sequence
atgc intronic sequence ATGC exonic sequencegtattagtgttgtcaatttttgcatatgtagctctctggttacatcatttctctacttgaaagtagtatcacattgtattcagctgtgggatgtatagagtaagtcaaatacttttcagttgtgatcatttgaaaatttctacagGCGGAGATTGAAACTCATGTGCACCCTGGGTCTCTGTCTCTATATGTTCACTATGGACAAAGTAGGCCAAAAGATGCAAAAAGTCTCGCCCAAAGTGATG
Basic information
species | Glycine max |
transcript | GLYMA12G30540.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G30540.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G015190_T01 (Zea mays), 3'ss of exon 8
--------gtattagtgttgtca----atttttgcatatgtagctctctggttacatcatttctctacttgaaagtagta----------tcacattgtattcagctgtgggatgtatagagtaagtcaa-atacttttcag------ttgtgatcatttgaa--aattt------ctacagGCGGAGATTGAAACTCATGTGCACCCTGGGTCTCTGTCTCTATATGTTCACTATGGACAAAGTAGGCCAAAAGATGCAAAAAGTCTCGCCCAAAGTGATG
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gtatagttctaattgtggcaccaccccaccattgcctatgctacattatatgtgtgcttatttgctgcagaaaagtaaaagataagaggttaacataattttgacttgctttaccaatttcatctttaagtgtttctttcaactatttttctgaacactagagttgatgttatgaataacagGCAGAGATTGAAGCTCATACTAAGCCAGGCACTGCGAATATATATGTTCACTATGGACAAAACAGGCCAAAAGATGCAAGCATCATTGGTCAGAGTGATA
upper sequence: GLYMA12G30540.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G22750.1 (Arabidopsis thaliana), 3'ss of exon 8
gtattagtgttgtcaatttt-tgcatatgtagctctctggttacatcatttctctacttgaaagtagtatcacattgtattcagctgtgggatgtatagagtaagtcaaatacttttcagttgtgatcatttgaaaatttctacagGCGGAGATTGAAACTCATGTGCACCCTGGGTCTCTGTCTCTATATGTTCACTATGGACAAAGTAGGCCAAAAGATGCAAAAAGTCTCGCCCAAAGTGATG
|| || || |||| || | | || | ||| | || || ||||| | | | ||||| | | | ||| |||| || | || ||| || | || ||| | |||||||||| |||| | ||||||||||| ||| | |||||||||||||| ||||| ||||| || ||||||||| ||| |||| |||||||
------gtattccatgcttaatgcacgtgca-cactatagtttggttatccgtc------aaagt--tgtta-attgttctttgtctttccttgt---------gtcagctaatattttcttgctcctgctttatgat-----cagACAGAGATTGAAATGCATGCAAAGCCTGGGTCTCTATCTGTCTATGTTCACTATGGGCAAAGCAGGCCGAAGGATGCAAAACTTCTTTCCCAGAGTGATG
upper sequence: GLYMA12G30540.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 8
------gtattagtgttgtcaatttttgcatatgtagctct-ctggttacatcatttctctacttg--aaagtagtatcacattgtattcagctgtgggatgtatagagtaagtcaaatacttttcagtt---gtgatcatttgaaa-------atttctacagGCGGAGATTGAAACTCATGTGCACCCTGGGTCTCTGTCTCTATATGTTCACTATGGACAAAGTAGGCCAAAAGATGCAAAAAGTCTCGCCCAAAGTGATG
| || || | | ||| | ||| | | || || | || | || ||| |||| ||| | | |||| | | | | | | | | ||| ||||| || || | ||| ||| ||| | | |||||| |||||||||||||||| || ||||| ||| ||||| | |||||||| ||||||||| |||| || |||||||||| ||| ||||||| |||||
gtagccattttcccattttgatctttacttttcttagatatacttattgccattttccactgcttattaaaggagt-tggtaatgtaatggg-tatcacaggctcaccagcaatcatgtacttctccatttctgagattattctaaacatctgtgtgttgacagGCAGAGATTGAAACTCATGCTCAACCTGGTTCTTTGTCTGTTTATGTTCATTATGGACAAGGTAGATTGAAGGATGCAAAAATTCTAGCCCAAAATGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtatagagtaagtcaaatacttttcagttgtgatcatttgaaaatttctacagGCGGAGATTGAAACTCATGTGCACCCTGGGTCTCTGTCTCTATATGTTCACTATGGACAAAGTAGGCCAAAAGATGCAAAAAGTCTCGCCCAAAGTGATG
tttctac CT-rich tract
atcatttgaaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattagtgttgtcaatttttgcatatgtagctctctggttacatcatttctctacttgaaagtagtatcacattgtattcagctgtgggatgtatagagtaagtcaaatacttttcagttgtgatcatttgaaaatttctacagGCGGAGATTGAAACTCATGTGCACCCTGGGTCTCTGTCTCTATATGTTCACTATGGACAAAGTAGGCCAAAAGATGCAAAAAGTCTCGCCCAAAGTGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG