Sequence
atgc intronic sequence ATGC exonic sequence...aaatatcaattttgactaaaacttaaaagggttttaaaacacattttaccatagaaaacaagagtcttagttgtcttattcataaatggttctcgtgcagGTTATTGTTTTGAGCACCATAAGACATCCAAGCATGGTGCTCCTCCTAGGAGCATGCCCAGAATATGGATGCCTTGTGTACGAGTACATGGAAAATGGAA
Basic information
species | Glycine max |
transcript | GLYMA07G03970.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G03970.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g12660.1 (Oryza sativa), 3'ss of exon 7
------aaatatcaattttgactaaaacttaaaagggttttaaaacacattttaccatagaaaacaagagtcttagttgtcttattcataaatggttctcgtgcagGTTATTGTTTTGAGCACCATAAGACATCCAAGCATGGTGCTCCTCCTAGGAGCATGCCCAGAATATGGATGCCTTGTGTACGAGTACATGGAAAATGGAA
|| |||| | || | ||| | | | | | || | | | |||||| ||| || || || | || ||| | || | ||| ||| || ||||||| ||||||||| || || ||||||||||| || || || ||||| ||||||||||||||||| | || |
tttaaccaaagtcaaaacgactcataatctgaaacagagggagtaattaataaactgcatggtgatgaa---taagttgta--atttatttatt-ttgttgttcagATAGAAGTGCTTAGCTGCATGAGGCATCCAAACATGGTGCTGCTGCTGGGAGCATGCCCGGAGTACGGGTGCCTGGTGTACGAGTACATGGACTACGGCA
upper sequence: GLYMA07G03970.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G17540.1 (Arabidopsis thaliana), 3'ss of exon 8
aaatatcaattttgactaaaacttaaaagggttttaaaacacattttaccatagaaaacaagagtcttagttgt-cttattcataaatggttctcgtg--cagGTTATTGTTTTGAGCACCATAAGACATCCAAGCATGGTGCTCCTCCTAGGAGCATGCCCAGAATATGGATGCCTTGTGTACGAGTACATGGAAAATGGAA
|| | | | ||||| | | | | | ||| | | || ||| | | ||| |||| | || | ||| | || ||| || || || | ||||||| ||||||| || || || || |||||||| ||||| ||||| |||||||||||||||||||
------------------------gtaataatataatccgacattatccta-atgtattgcatgtcctctccatactaattaacatatgtgtctcctcactagATCGAGGTTCTAAGTTGCATGAGGCACCCTAACATGGTGATCCTCCTCGGTGCTTGTCCCGAATATGGCTGCCTGGTGTATGAGTACATGGAAAATGGAA
upper sequence: GLYMA07G03970.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0002g01830.t01 (Vitis vinifera), 3'ss of exon 7
aaatatcaattttgac---taaaacttaaaagggttttaaaacacattttaccatagaaaacaagagtcttagttgtctt-attcataaatggttctcgtgcagGTTATTGTTTTGAGCACCATAAGACATCCAAGCATGGTGCTCCTCCTAGGAGCATGCCCAGAATATGGATGCCTTGTGTACGAGTACATGGAAAATGGAA
| ||| |||| | ||||| || || ||||| | | || | || | | ||| ||| | | || | | |||||| || ||||| ||| |||||||||| ||||| ||||| |||| || ||||| || ||||||||||||||||| || |||||||||||||| |
---gaccaaacttgatctgtggaacttttgagccacttgtctcacatgtgtgcttatttattgagttaaacaactaacttcatttttctgttgtga-ctttcagGTTGAGGTACTGAGCTGCATGAGACATCCAAATATGGTTCTCCTTGTAGGTGCCTGCCCTGAGTATGGATGCCTTGTGTATGAATACATGGAAAATGGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaccatagaaaacaagagtcttagttgtcttattcataaatggttctcgtgcagGTTATTGTTTTGAGCACCATAAGACATCCAAGCATGGTGCTCCTCCTAGGAGCATGCCCAGAATATGGATGCCTTGTGTACGAGTACATGGAAAATGGAA
ttctcgt CT-rich tract
tcttattcataaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatatcaattttgactaaaacttaaaagggttttaaaacacattttaccatagaaaacaagagtcttagttgtcttattcataaatggttctcgtgcagGTTATTGTTTTGAGCACCATAAGACATCCAAGCATGGTGCTCCTCCTAGGAGCATGCCCAGAATATGGATGCCTTGTGTACGAGTACATGGAAAATGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - gggtttt
- - - - - - - - - - - - - - - - - - -aacacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaaacaa