Sequence
atgc intronic sequence ATGC exonic sequencegtttgtcttaattgaggtgactgcagccccctaaaggcatttttgcctctctttgaaattcactttttaagagcttttatgtgttatggctagATTTTTGATGCCCTGAATTCGTTGGAATTGAAGTCACTAGAAGAGCCACTCTACCTTTTTGGACAGTTTTTTCAGAAGCCACTTGAATGCTTGACACTAG
Basic information
species | Glycine max |
transcript | GLYMA10G10990.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 2
gt-ttgtcttaattgaggtgactgcagccc----cctaaaggcat--ttttgcctctctttgaaattc--actttttaagagcttttatgtgttatggctagATTTTTGATGCCCTGAATTCGTTGGAATTGAAGTCACTAGAAGAGCCACTCTACCTTTTTGGACAGTTTTTTCAGAAGCCACTTGAATGCTTGACACTAG
|| |||||| | | ||| | | | || | ||| | ||| | || |||||| || || | | | | | | | |||| || || | || ||||||||||| ||||||| ||||| ||||| || || |||||||| || ||||| |||||||| | |||||||| || ||||
gtactgtcttcagctccttacctgtatctcgtactcttgtgtcataatagtgcaacgtttagaaattataacaattgtctaacaatcacat--tgaaac-agATCTTCAATTCACTAAATTCGTTGGAGCTGAAGTCTCTAGAGGAGCCCCTTTATCTTTTTGGTCAATTTTTCCAGAAGCCTTTGGAATGCTTAACTCTAG
upper sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 2
gtttgtcttaattgaggtgactgcagccccctaaaggcatttttgcctctctttga-aattcactttttaagagcttttatgtgttatggctagATTTTTGATGCCCTGAATTCGTTGGAATTGAAGTCACTAGAAGAGCCACTCTACCTTTTTGGACAGTTTTTTCAGAAGCCACTTGAATGCTTGACACTAG
| || | ||| | |||| | | || || | || || ||| |||| | || |||| || | | |||| || ||||| | ||||||||||||||||| ||||||||||||||||||| ||||||||||| ||||||||||||||||| |
------------------gtctcatgtgatttaatttgacttttacgagtgttcactgatatatattacaacttcttaactgtggtttgaacagATCTTCAACTCATTGAACTCCCTGGAACTAAAGTCACTAGAAGAGCCTATCTACCTTTTTGGACAGTTCTTTCAGAAGCCGCTTGAATGCTTGACACTCG
upper sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 2
gtttgtcttaattgaggtgactgcagccccctaaaggcatttttgcctctctttgaaattcactttttaagagcttttatgtgttatggctagATTTTTGATGCCCTGAATTCGTTGGAATTGAAGTCACTAGAAGAGCCACTCTACCTTTTTGGACAGTTTTTTCAGAAGCCACTTGAATGCTTGACACTAG
|| ||| || |||||||||||| | | | | ||||||||||||||| ||| |||| | |||||| || || ||| || ||||| || ||||||| || || ||||||||||||||||| || |||||| |||||||||| |||||||| ||||||||||| ||||||||||||||||| |
gtctgttttgattgaggtgactcaatcttcttctgggcatttttgcctctacttgtaatttttatcttaagaatttgcatatgtattgagtagATCTTCAATGCCCTAAACTCATTGGAATTGAAGTCACTTGAGGAGCCAATCTACCTTTTCGGACAGTTCTTTCAGAAGCCTCTTGAATGCTTGACACTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttgcctctctttgaaattcactttttaagagcttttatgtgttatggctagATTTTTGATGCCCTGAATTCGTTGGAATTGAAGTCACTAGAAGAGCCACTCTACCTTTTTGGACAGTTTTTTCAGAAGCCACTTGAATGCTTGACACTAG
aaattcactttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtcttaattgaggtgactgcagccccctaaaggcatttttgcctctctttgaaattcactttttaagagcttttatgtgttatggctagATTTTTGATGCCCTGAATTCGTTGGAATTGAAGTCACTAGAAGAGCCACTCTACCTTTTTGGACAGTTTTTTCAGAAGCCACTTGAATGCTTGACACTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC