Sequence
atgc intronic sequence ATGC exonic sequence...aactctactgtttctgctttttagtatttttgaatttgtattgtcataaaaataatctttgtattctttgattaaccatgtgttattttatcatttgcagGCAAAGGGGATGAATTATCTTCATAAACGTAATCCCCCCATTGTTCATAGAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG
Basic information
| species | Glycine max |
| transcript | GLYMA10G07610.1 |
| intron # | 12 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G07610.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os09g39320.1 (Oryza sativa), 3'ss of exon 11
------aactctactgt-ttctgctttttagtatttttgaatttgtattgtcataaaaa----taatctttgtatt-----ctttgattaaccatgtgttattttatcatttg-cagGCAAAGGGGATGAATTATCTTCATAAACGTAATCCCCCCATTGTTCATAGAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG
| | | | |||| ||||| | ||||| | | | ||| | || ||| | | | || | || | | | | ||| ||||||||||| ||||| ||||| |||||||||| || || ||||||||| | ||| |||| |||||||| ||||| ||||||||||| ||||| |||||
gtattgtattatctcatattctcttttttgtgacttttgtctacctgctttcacatgaacttttaactcccaaaacaagaattcatactatttaagtaatctctggttgcttgacagGCAAAGGGAATGAACTATCTACATAAACGTAGCCCTCCTATTGTTCATCGTGATTTGAAGTCTCCAAATCTTCTAGTTGACAAGAAGTATACCGTGAAA
upper sequence: GLYMA10G07610.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G059671_T03 (Zea mays), 3'ss of exon 9
aactctactgtttctgctttttagtatttttgaatttgtattgtca--taaaaataatctttgtattctttgattaaccat-gtgttattttatcatttgcagGCAAAGGGGATGAATTATCTTCATAAACGTAATCCCCCCATTGTTCATAGAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG-
|| | | | || | || ||| ||| | ||| | ||| | | | ||| || | || || | | | || | |||||||| |||||||| ||||||||||| |||||||| || || || || | ||||| || || |||||||| | |||||||| || || || |||||
--tggcaccgcta-tatacttcaataaagctgacattggcctttcagttgaaattgaagcaatcgtcgtttaatactctattgtttgcatcttctatgtacagGCAAAAGGGATGAACTATCTTCATAAGCGTAATCCTCCAATAGTCCACCGGGATCTTAAGTCACCAAACCTGTTGGTTGACAAAAAGTACACTGTGAAAG
upper sequence: GLYMA10G07610.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G059671_T01 (Zea mays), 3'ss of exon 9
aactctactgtttctgctttttagtatttttgaatttgtattgtca--taaaaataatctttgtattctttgattaaccat-gtgttattttatcatttgcagGCAAAGGGGATGAATTATCTTCATAAACGTAATCCCCCCATTGTTCATAGAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG
|| | | | || | || ||| ||| | ||| | ||| | | | ||| || | || || | | | || | |||||||| |||||||| ||||||||||| |||||||| || || || || | ||||| || || |||||||| | |||||||| || || || |||||
--tggcaccgcta-tatacttcaataaagctgacattggcctttcagttgaaattgaagcaatcgtcgtttaatactctattgtttgcatcttctatgtacagGCAAAAGGGATGAACTATCTTCATAAGCGTAATCCTCCAATAGTCCACCGGGATCTTAAGTCACCAAACCTGTTGGTTGACAAAAAGTACACTGTGAAA
upper sequence: GLYMA10G07610.1 (Glycine max), 3'ss of exon 12
lower sequence: AT5G03730.1 (Arabidopsis thaliana), 3'ss of exon 10
aactctactgtttctgctttttagtatttttgaatttgtattgtcataaaaataatctttgtattctttgatt---aaccatgtgttattttatcatttgcagGCAAAGGGGATGAATTATCTTCATAAACGTAATCCCCCCATTGTTCATAGAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG
| | | | || | | || | || | | | | ||||| || || || | ||| | | | || || | ||||| ||||| |||||||||||||| || || ||||| || ||||| ||||||||||| |||||||||||| | | |||||||| ||||||||||| |||
-------gtatgtttaattccttatgttac-atgtatgggtgattacttcc-tgatcttggtgtttcttcacatggaactttctttccaattctctgtcacagGCTAAGGGAATGAATTATCTTCACAATCGCAATCCTCCAATTGTGCATAGAGATCTAAAATCTCCAAACTTATTGGTTGACAAAAAATATACAGTCAAG
upper sequence: GLYMA10G07610.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv08s0007g03910.t01 (Vitis vinifera), 3'ss of exon 10
aactctactgtttctgctttttagtatttttgaatttgtattgtca-taaaaataatct-ttgtatt----ctttgattaaccatgtgttattttatcatttgcagGCAAAGGGGATGAATTATCTTCATAAACGTAATCCCCCCATTGTTCATAGAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG
|| | ||| | | || ||||| | || || ||||||| | || |||| || | | | || ||||| | ||||| ||||| |||||||||||||||||||| ||||| |||||||||||| ||||| |||| |||||||||||| | |||||||| ||||| || ||||||
-----tatt-tttttagtgattgttatttggatgcaccttttaccagctaaaataacttgttttattatcatttccgtgctttttttttttttttaaaacaaacagGCCAAGGGCATGAATTATCTTCATAAACGCAATCCTCCCATTGTTCATCGAGATTTGAAGTCTCCAAACCTTTTGGTTGACAAAAAATACACCGTGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaaaataatctttgtattctttgattaaccatgtgttattttatcatttgcagGCAAAGGGGATGAATTATCTTCATAAACGTAATCCCCCCATTGTTCATAGAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG
gattaac putative branch site (score: 2)
ttttatc putative PPT
tgttattttatcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aactctactgtttctgctttttagtatttttgaatttgtattgtcataaaaataatctttgtattctttgattaaccatgtgttattttatcatttgcagGCAAAGGGGATGAATTATCTTCATAAACGTAATCCCCCCATTGTTCATAGAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- -tctactg
- - - - - -ttctgct
- - - - - - - - - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgtg
