Sequence
atgc intronic sequence ATGC exonic sequence...aggttcctaatttatattaagagaatgtagatgttaaagctgtatagttttaaagattacttaatcaaaaactcataattcacttgatgaacttttgcagACCATTGCAACGGTCTGTATGTTCCTTGCTGGGAAGGTTGAAGAGACTCCTCGTCCACTAAAGGATGTTATTCTTGTTTCTTATGAGATCATTCACAAGA
Basic information
species | Glycine max |
transcript | GLYMA07G35010.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os12g30020.2 (Oryza sativa), 3'ss of exon 3
aggttcctaatttatattaagagaatgtagatgttaaagctgtatagttttaaagattacttaatcaaaaactcataattcacttgatgaacttttgcagACCATTGCAACGGTCTGTATGTTCCTTGCTGGGAAGGTTGAAGAGACTCCTCGTCCACTAAAGGATGTTATTCTTGTTTCTTATGAGATCATTCACAAGA
| | | || | ||| | | | | ||||| | | | | | || | |||| |||||| | || ||||| ||||| || || || |||||| | ||||| || ||||||||||| ||| | || | || ||||||||||| |||||||||||||| ||||| || |
gattgcatgatcttaattttactcctatgttaagtgttgtcctatagatctgtacctgtttgaagagagaacttataatttgtactgaccgttcttacagACAATTGCCACAGTTTGCATGTTCTTGGCTGGAAAAGTTGAAGAGACGCCTAGGCCTTTGAAAGATGTTATTCTGGTTTCTTATGAGATTATTCATAAAA
upper sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 3
aggttcctaatttatattaagagaatgtagatgttaaagctg----tatagttttaaagattacttaatcaaaaactcataattcacttgatga-acttttgcagACCATTGCAACGGTCTGTATGTTCCTTGCTGGGAAGGTTGAAGAGACTCCTCGTCCACTAAAGGATGTTATTCTTGTTTCTTATGAGATCATTCACAAGA
||| |||| | ||| |||| | || || ||| | |||| ||| | || ||| ||| || |||||||||||||||| || || |||||||||||||| |||||||| || ||||| || || | || ||||||||| |||| || |||||||| || ||||||
-----tctatgcagaattagtgaattgtgattgttgttatttcttctagagcggaaaaaaatactcggatctttactgagctctctcttcatgttgtttctgcagACCATTGCAACTGTATGCATGTTCCTTGCTGGAAAGGTTGAGGAAACTCCACGGCCCTTGAAAGATGTTATTTTTGTCTCCTATGAGATTATAAACAAGA
upper sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G19600.1 (Arabidopsis thaliana), 3'ss of exon 4
-aggttcctaatttatattaagagaatgtagatgttaaagctgtatagttttaaag--attacttaatcaaaaactcataattcacttgatgaacttttgcagACCATTGCAACGGTCTGTATGTTCCTTGCTGGGAAGGTTGAAGAGACTCCTCGTCCACTAAAGGATGTTATTCTTGTTTCTTATGAGATCATTCACAAGA
|||| | | ||||| | | |||| || || | | ||| |||| |||||| | || ||| | || | || ||||| ||||| || ||||| ||||||||||| || || || ||||| |||||| | || |||| ||||||||| |||| || |||||||| || |||||||
ctagttctttgtccatatttatcct-tctagaaactagcgcagaacagtattaagattattactgagtcctttttccatgttgtcctccct--cctcacccagACGATTGCTACAGTCTGCATGTTCCTTGCGGGAAAAGTGGAAGAAACTCCTAGGCCGTTAAAAGATGTTATTGTTGTCTCCTATGAGATAATACACAAGA
upper sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G19560.1 (Arabidopsis thaliana), 3'ss of exon 3
--aggttccta-atttatattaagagaatgtagatgttaaagctgtatagttttaaagattacttaatcaaaaactcataa-ttcacttgatgaactt---ttgcagACCATTGCAACGGTCTGTATGTTCCTTGCTGGGAAGGTTGAAGAGACTCCTCGTCCACTAAAGGATGTTATTCTTGTTTCTTATGAGATCATTCACAAGA
| || | || | || || || | || || | ||| |||| | || | | ||| || || | || | | || | ||||| |||||||| ||||| ||| |||| |||||||||||||| || ||||| || || | || |||||| ||| || ||||||| || |||||||
gtaaatttttgtgcttgttttgcgatgatt---gtattcttcttgaaaagt----aagaacaactagactagtacttatgcctttgcctgttacatttgctctccagACGATTGCAACAGTCTGCATGCTCCTAGCTGGGAAGGTTGAGGAAACTCCAGTGACATTAGAAGACGTTATTATTGCCTCATATGAGAGAATACACAAGA
upper sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 2
----aggttcctaatttatattaagagaatgtagatgttaaagctgtatagttttaaagattacttaatcaaaaactcataattcacttgatgaacttttgcagACCATTGCAACGGTCTGTATGTTCCTTGCTGGGAAGGTTGAAGAGACTCCTCGTCCACTAAAGGATGTTATTCTTGTTTCTTATGAGATCATTCACAAGA
|| || || || || | | || | | || | ||||| | | | | || | || | ||| | ||| |||||||| || || || || |||||||| || |||||||||||||||||||| || ||||| ||||||||||| |||||||| ||||| || ||||| || |
tgcatgggaagaaaagtagataaaaatgaaatacgcaagagattagt-tggttttgcatttgatccattctta---tcgctaccttctttcatatgctttacagACCATCGCCACAGTATGCATGTTCCTCGCAGGGAAGGTTGAAGAGACTCCACGCCCACTGAAGGATGTTATCCTTGTTTCCTATGAAATAATTCATAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttttaaagattacttaatcaaaaactcataattcacttgatgaacttttgcagACCATTGCAACGGTCTGTATGTTCCTTGCTGGGAAGGTTGAAGAGACTCCTCGTCCACTAAAGGATGTTATTCTTGTTTCTTATGAGATCATTCACAAGA
cttttgc CT-rich tract
taaagattacttaatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aggttcctaatttatattaagagaatgtagatgttaaagctgtatagttttaaagattacttaatcaaaaactcataattcacttgatgaacttttgcagACCATTGCAACGGTCTGTATGTTCCTTGCTGGGAAGGTTGAAGAGACTCCTCGTCCACTAAAGGATGTTATTCTTGTTTCTTATGAGATCATTCACAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- gttccta
- - - - - - - - - - - gaatgta
- - - - - - - - - - - - - - - - - - -agctgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaaaac