Sequence
atgc intronic sequence ATGC exonic sequence...gaatgctgaccaatattgattgactaaatctatatttttgttcagtatctggttataaagtagattcaatgcttattctttgtcacttaaaatgttttagGGGCATCATCTAGATCTACGACTTGTCCGGAATCAATGGCTTTTGATAGATCCCAAAGTAGATTTTCTGATGTCAGAGGCTAATGAAGATAAAACATTTG
Basic information
species | Glycine max |
transcript | GLYMA06G09480.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G09480.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G039505_T01 (Zea mays), 3'ss of exon 10
gaatgctgaccaatattgattgactaaatctatat-ttttgttcagtatctggttataaagtagattcaatgcttattctttgtcacttaaaatgttttagGGGCATCATCTAGATCTACGACTTGTCCGGAATCAATGGCTTTTGATAGATCCCAAAGTAGATTTTCTGATGTCAGAGGCTAATGAAGATAAAACATTTG
|| || | | |||| | ||||| | |||||| || | | || |||| |||| || ||||| ||| |||| ||||| | || ||||||||| | | ||||| || || | |||||||| |||||||||||||||||||||| ||
------------------gcaagctccattcgtctcttttatgtttgatctgagttaaaagtaatacttatctgaaccttacactcatttaaataaac-agGGTCACCATCTGGATTTACGTCTTGTTAGAAACCAATGGCTTCTATTGGATCCTGGAGCTGACTGCCTGATGTCTGAGGCTAATGAAGATAAAACATCTG
upper sequence: GLYMA06G09480.1 (Glycine max), 3'ss of exon 12
lower sequence: AT1G58350.2 (Arabidopsis thaliana), 3'ss of exon 10
gaatgctgaccaatattgattgactaaatctatatttttgttcagtatctggttataaagtagattcaatgcttattc--------tttg-tcacttaaaatgttttagGGGCATCATCTAGATCTACGACTTGTCCGGAATCAATGGCTTTTGATAGATCCCAAAGTAGATTTTCTGATGTCAGAGGCTAATGAAGATAAAACATTTG
| | ||| | |||| | | |||| || | || || | | || |||| | |||| ||| | | ||||||||||| | || || | |||||||||||||| |||||| |||||||||| || |||| ||||| ||||| ||||| ||||| || |||||| ||
--------gcaagtatcactgaactataatagcaattttcttaactagctttccttttgatctgtttttcgcttgcttgatcgaaatttgctcatattggttaccatagGGGCATCACTTGGACTTAAGGCTTGTCCGGAATCAGTGGCTTCTGATAGATCCAAAGATAGAGTTTCTCATGTCTGAGGCAAATGAGGAGAAAACACATG
upper sequence: GLYMA06G09480.1 (Glycine max), 3'ss of exon 12
lower sequence: AT1G58350.3 (Arabidopsis thaliana), 3'ss of exon 10
gaatgctgaccaatattgattgactaaatctatatttttgttcagtatctggttataaagtagattcaatgcttattc--------tttg-tcacttaaaatgttttagGGGCATCATCTAGATCTACGACTTGTCCGGAATCAATGGCTTTTGATAGATCCCAAAGTAGATTTTCTGATGTCAGAGGCTAATGAAGATAAAACATTTG
| | ||| | |||| | | |||| || | || || | | || |||| | |||| ||| | | ||||||||||| | || || | |||||||||||||| |||||| |||||||||| || |||| ||||| ||||| ||||| ||||| || |||||| ||
---------caagtatcactgaactataatagcaattttcttaactagctttccttttgatctgtttttcgcttgcttgatcgaaatttgctcatattggttaccatagGGGCATCACTTGGACTTAAGGCTTGTCCGGAATCAGTGGCTTCTGATAGATCCAAAGATAGAGTTTCTCATGTCTGAGGCAAATGAGGAGAAAACACATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatctggttataaagtagattcaatgcttattctttgtcacttaaaatgttttagGGGCATCATCTAGATCTACGACTTGTCCGGAATCAATGGCTTTTGATAGATCCCAAAGTAGATTTTCTGATGTCAGAGGCTAATGAAGATAAAACATTTG
acttaaaatgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaatgctgaccaatattgattgactaaatctatatttttgttcagtatctggttataaagtagattcaatgcttattctttgtcacttaaaatgttttagGGGCATCATCTAGATCTACGACTTGTCCGGAATCAATGGCTTTTGATAGATCCCAAAGTAGATTTTCTGATGTCAGAGGCTAATGAAGATAAAACATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
gaatgct
- - - - - - - - - - - - - - - - - - - - - - - -tctggtt