Sequence
atgc intronic sequence ATGC exonic sequence...cattattcataatataatgatactgttaagcatgttagaaatgaaatggggctaatgatatcttatttcttacctggttttcatttcttgtcatgaacagAATATGGATGAAGCACACAGCAGCCCTGGGTTGCATGATGCAGCTGGACCTGGTCTTGCAGAAGAATGTGCGACACTG
Basic information
species | Glycine max |
transcript | GLYMA07G35280.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G35280.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 1
cattattcataatataatgatactgttaagcatgttagaaatgaaatggggctaatgatatcttatttcttacc-tggttttcatttcttgtcatgaacagAATATGGATGAAGCACACAGCAGCCCTGGGTTGCATGATGCAGCTGGACCTGGTCTTGCAGAAGAATGTGCGACACTG
|| | |||| | | |||| | | ||||| | || || |||| || | ||| || | || | ||||||| ||||||||||||||||||||||||| |||||| ||||||||| |||||||| |||||||| ||||| ||| ||
aatgaacaccaataagcatgcgtggattagcac-taactgatgaaggagactggtctttagtttcattctgacaatcatttatcattttggtggttaacagAACTTGGATGAAGCACACAGCAGCCCTGGTCTGCATGCTGCAGCTGGGCCTGGTCTAGCAGAAGAGTGTGCAACATTG
upper sequence: GLYMA07G35280.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S204_122V6.1 (Physcomitrella patens), 3'ss of exon 2
----------cattatt----cataatataatgatactgttaagcatgttagaaatgaaatggg-gctaatg----atatcttatttct---------tacctggttttcatttct------------tgtcatgaacagAATATGGATGAAGCACACAGCAGCCCTGGGTTGCATGATGCAGCTGGACCTGGTCTTGCAGAAGAATGTGCGACACTG
||||||| | | || | | || || | || | | || ||| | |||| | | || ||| || || ||| || | | || | | ||||||||| ||||||||||||||||||| ||||| ||||| || ||||||||||| ||||| || || || || | |||
gtaaattgtgcattattttatcctgatgttggtaaacgattcaaagctgcagcagtcaagtggaagaaaatgtagtacacctcattactactctcatctaactgtgttgtactgctgaaactccggaatatggtgaacagAACCTGGATGAAGCACACAGCAGTCCTGGCTTGCACCCGGCGGCTGGACCTGGGCTTGCGGAGGAGTGCGCTGCTCTG
upper sequence: GLYMA07G35280.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S37_110V6.1 (Physcomitrella patens), 3'ss of exon 2
---------------cattattcataatataatgatactgttaagca----tgttagaaatgaaatggggctaatg-atatcttatttcttacc-----------tggttttcatttcttgtc------------atgaacagAATATGGATGAAGCACACAGCAGCCCTGGGTTGCATGATGCAGCTGGACCTGGTCTTGCAGAAGAATGTGCGACACTG
| ||| ||| | || ||| |||| | | | || || | | ||||| ||| | | || ||| | | || | |||||||||| ||||||||||||| |||| ||||| ||||| |||||||||||||| ||||| || || || || || |||
gtaaattatgcatcgtttctttcgaaattaatggactatgtaaagctgcaccatccagacaggggtgaatgtagtacacatcttcttttctgctcccttgttctgtgctttctactctttaaccttctaaatatggtgaacagAATCTGGATGAAGCACATAGCACTCCTGGCTTGCACCCAGCAGCTGGACCTGGACTTGCTGAGGAGTGCGCCACTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggggctaatgatatcttatttcttacctggttttcatttcttgtcatgaacagAATATGGATGAAGCACACAGCAGCCCTGGGTTGCATGATGCAGCTGGACCTGGTCTTGCAGAAGAATGTGCGACACTG
ttcttac putative branch site (score: 2)
ttttcatttcttgtc putative PPT
taatgatatcttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattattcataatataatgatactgttaagcatgttagaaatgaaatggggctaatgatatcttatttcttacctggttttcatttcttgtcatgaacagAATATGGATGAAGCACACAGCAGCCCTGGGTTGCATGATGCAGCTGGACCTGGTCTTGCAGAAGAATGTGCGACACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - gatactg
- - - - - - - - - - - - - - -gcatgtt
- - - - - - - - - - - - - - - - - - - aaatgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - gctaatg