Sequence
atgc intronic sequence ATGC exonic sequence...gtggtccacatatattgtagacgttgttgttgtattagtttatcccaaatgttcaatcttcattcattttaagtctttttttggacttatctttttccagGTGGTTGAGGTTGTTAGTGGAGATTGCATCATTGTTGCTGATGATTTGATTCCGTATGGCAGTCCACTAGCAGAGCGGCGAGTCAACCTTTCAAGTATTA
Basic information
species | Glycine max |
transcript | GLYMA05G33320.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os02g32350.2 (Oryza sativa), 3'ss of exon 8
gtggtccacatatattgtagacgttgttgttgtat-tagtttatcccaaatgttcaatcttcattcattttaagtctttttttggacttatctttttccagGTGGTTGAGGTTGTTAGTGGAGATTGCATCATTGTTGCTGATGATTTGATTCCGTATGGCAGTCCACTAGCAGAGCGGCGAGTCAACCTTTCAAGTATTA
|| | |||| | | |||| ||| | | ||| ||| | ||| | ||| || |||| | ||| ||| |||| || |||||||| ||||| ||||||||||||||||||||||| ||| || || ||||| ||||| || || || || |||||||| ||||
--------------gtgggttccctgttctcacaagtagtgtattcaacatgatcatgcg--attgaagctaa--tttgctttgtgttgatcctttcatagGTTGTAGAGGTTGTGAGTGGGGATTGCATCATTGTTGCTGATGACGCAGCTCCTTACGGAAGTCCTTCTGCAGAACGCCGGGTTAATCTTTCAAGCATTA
upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G136296_T03 (Zea mays), 3'ss of exon 9
--gtggtccacatatattgtagacgttgttgttgtattagtttatcccaaatgttcaatcttcattcattttaagtctttttttggacttatctttttccagGTGGTTGAGGTTGTTAGTGGAGATTGCATCATTGTTGCTGATGATTTGATTCCGTATGGCAGTCCACTAGCAGAGCGGCGAGTCAACCTTTCAAGTATTA
||| |||| | ||| ||| | || | || | || ||| || | | | | | ||||| | |||| || |||||||| |||||||| ||||| |||||||| ||||| |||||||||| ||| ||||||||||| ||| || || || || || || ||||| ||||
gtgtgtcttacattctccgatgacagtgtgtattcatcatgttcacataattgtatgatagtaact-------attttttttccatgttgatctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCTCCATATGGCAGTCCTTCAGCCGAACGTCGGGTTAATCTGTCAAGCATTA
upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 8
gtggtccacatatattgtagacgttgttgttgtattagtttatcccaaatg-ttcaatcttcattcattttaagtctttttttggacttatctttttccagGTGGTTGAGGTTGTTAGTGGAGATTGCATCATTGTTGCTGATGATTTGATTCCGTATGGCAGTCCACTAGCAGAGCGGCGAGTCAACCTTTCAAGTATTA
| | || | | || || | || | ||| | | | ||| | | | | | | | ||| | | || | ||||||| || |||||||| |||||||| ||||||||||||||||||||| | || |||||||||||| | ||||| || |||||||| || |||||||| |
-----gtaagtgctttttctgtgaaattatttgacaaggtcatctctgttaactaaatacttaaatagtcttc-tatctttacacatcttcctgtctccagGTTGTGGAGGTTGTGAGTGGAGACTGCATCATTGTTGCTGATGATGCTGTCCCATATGGCAGTCCATTGGCAGAACGACGAGTCAATCTCTCAAGTATCA
upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 9
gtggtccacatatattgtagacgttgttgttgtattagtt---tatcccaaatgttcaatctt-cattcattttaagtctttttttggacttatctttttccagGTGGTTGAGGTTGTTAGTGGAGATTGCATCATTGTTGCTGATGATTTGATTCCGTATGGCAGTCCACTAGCAGAGCGGCGAGTCAACCTTTCAAGTATTA
|| | || || | | || | | | | | | | | ||| || | | |||||| ||| | | | || | |||| |||||||||||||||| ||||| |||||||||||||| |||||||||| | || | ||||| ||| ||||||| || ||||| ||||| || ||||| |
-----gtgggtagttggtcaacataatgcttacgtaaatcctatcttttataaatggaattttaccctaattttatgtccatctc---atttggccttttt-agGTGGTTGAGGTTGTAAGTGGGGATTGCATCATTGTAGCTGATGATTCTCTCCCATTCGGCAGCCCATTAGCAGAACGACGAGTTAACCTCTCCAGTATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaatgttcaatcttcattcattttaagtctttttttggacttatctttttccagGTGGTTGAGGTTGTTAGTGGAGATTGCATCATTGTTGCTGATGATTTGATTCCGTATGGCAGTCCACTAGCAGAGCGGCGAGTCAACCTTTCAAGTATTA
cttatctttttcc CT-rich tract
attcattttaagtctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggtccacatatattgtagacgttgttgttgtattagtttatcccaaatgttcaatcttcattcattttaagtctttttttggacttatctttttccagGTGGTTGAGGTTGTTAGTGGAGATTGCATCATTGTTGCTGATGATTTGATTCCGTATGGCAGTCCACTAGCAGAGCGGCGAGTCAACCTTTCAAGTATTA
- - -ccacata
- - - - - - - - - - - gttgttg
- - - - - - - - - - - - - - - - - - - - - tcccaaa