Sequence
atgc intronic sequence ATGC exonic sequence...aataacaataacaccaactttttccctgaagatttataatatagatgatttttcatatgtatttttaggtgtattacactattaacttgtaaaagtgcagGAAAATTCTTCAAAGCTTGACTCTAGCATATGGTCAAATGATTTTGAAAAGTGGATTCTTCCATGCAGATCCTCATCCAGGAAATATCCTGATTTGTAAA
Basic information
species | Glycine max |
transcript | GLYMA05G02990.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G02990.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g67720.3 (Oryza sativa), 3'ss of exon 7
aataacaataacaccaactttttccctgaagatttataatatagatgatttttcatatgtatttttaggt-gtattacactat-taacttgtaaaagtgcagGAAAATTCTTCAAAGCTTGACTCTAGCATATGGTCAAATGATTTTGAAAAGTGGATTCTTCCATGCAGATCCTCATCCAGGAAATATCCTGATTTGTAAA
| | | ||| | ||| |||| | | | | | | | || || | | | | | ||| | | | | || | || | | |||||||||||| | | | || || || |||||||||||||||||||| ||| || |||||||||||||| || |||||||| ||||| || || ||
agtttctctaaaagaaaccttttggtttatcagatgt--tctgattgtttctactttccagtgctcaggccatctcagaaaatattgtttttcttaatgcagGAAAATTTTAACAGATCTTACACTTGCCTATGGTCAAATGATTTTGAAGGATGGTTTTTTCCATGCAGATCCACACCCAGGAAACATCCTTATCTGCAAG
upper sequence: GLYMA05G02990.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G113264_T01 (Zea mays), 3'ss of exon 7
---aataacaataacaccaactttttccctgaagatttataatatagatgatttttcatatgtatttttaggtgtattacactattaacttgtaaaagtgcagGAAAATTCTTCAAAGCTTGACTCTAGCATATGGTCAAATGATTTTGAAAAGTGGATTCTTCCATGCAGATCCTCATCCAGGAAATATCCTGATTTGTAAA
| ||| || |||| || || | | | || |||| || || |||||| ||| || | | | | | |||||||| ||| | | | ||||| ||||||||||||||||| ||||| ||| || |||||||||||||| || |||||||| ||||| || |||||
aatcctttttgtaaattcagtttttcttgtgtagccgttt--cttcaattgttttaaattctaatgcttaggt-tatctcaaaagtccccttttctgttgcagGAAGATTTTGTCAGATCTTACTCTTGCATATGGTCAAATGATCTTGAAGGATGGCTTTTTCCATGCAGATCCACACCCAGGAAACATCCTTATCTGTAAG
upper sequence: GLYMA05G02990.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM5G884972_T02 (Zea mays), 3'ss of exon 7
-aataacaataacaccaactttttccctgaagatttataatatagatgatttttcatatgtatttttaggtgtattacactattaacttg--taaaagtgcagGAAAATTCTTCAAAGCTTGACTCTAGCATATGGTCAAATGATTTTGAAAAGTGGATTCTTCCATGCAGATCCTCATCCAGGAAATATCCTGATTTGTAAA
| | | | ||| || | | | | || | || | ||| || || |||||| ||| || | || | | ||||||| ||| | | | ||||| ||||||||||||||||| ||||| ||| || |||||||||||||| || |||||||| ||||| || || ||
cattctctttttttgcaaattcattttttta--tccatgtctttaattactttaaattctaatgattaggt-tatctcaaaagtacccccatttctgacgcagGAAGATTTTGTCAGATCTTACTCTTGCATATGGTCAAATGATCTTGAAGGATGGCTTTTTCCATGCAGATCCACACCCAGGAAACATCCTTATCTGCAAG
upper sequence: GLYMA05G02990.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv17s0000g10260.t01 (Vitis vinifera), 3'ss of exon 7
aataacaataacaccaactttttccctgaagatttataatatagatgatttttcatatgtattttta--------ggtgtatt-acactattaacttgtaaaagtgcagGAAAATTCTTCAAAGCTTGACTCTAGCATATGGTCAAATGATTTTGAAAAGTGGATTCTTCCATGCAGATCCTCATCCAGGAAATATCCTGATTTGTAAA
| | | | || | ||| | ||| ||| || | |||| || |||| || || | || || | || | || |||||||| || ||| |||| |||||| |||||||||| |||||||| |||| ||||| ||||||||||||||||| ||||| |||||||| ||||| || |||
---------tgctctattatatttcttgacaagttactcaataattggtctttccgttgccctttttttcaaaacagtaaatccatacacttcaattctgtaattgcagGAAGATCCTTGAAAGTTTGACTATAGCATATGGGCAAATGATACTGAAGAGTGGTTTCTTCCATGCAGATCCCCATCCTGGAAATATTCTGATCTGCAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatttttcatatgtatttttaggtgtattacactattaacttgtaaaagtgcagGAAAATTCTTCAAAGCTTGACTCTAGCATATGGTCAAATGATTTTGAAAAGTGGATTCTTCCATGCAGATCCTCATCCAGGAAATATCCTGATTTGTAAA
tattaac putative branch site (score: 1)
tttcatatgtattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aataacaataacaccaactttttccctgaagatttataatatagatgatttttcatatgtatttttaggtgtattacactattaacttgtaaaagtgcagGAAAATTCTTCAAAGCTTGACTCTAGCATATGGTCAAATGATTTTGAAAAGTGGATTCTTCCATGCAGATCCTCATCCAGGAAATATCCTGATTTGTAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT