Sequence
atgc intronic sequence ATGC exonic sequence...tgttaaatgcttgattgaaagccaatgacttcaccttacttctctcattgtcatcatcatctatgttgtctttttgtgaaataccaatctctgtttccagGTTGGTTTCCAAGCCATTGCTGAAGCTCTTGGTCTGGCTGCTGTCAAGGCAGTGGTTGCTATTTCAGCCATAATTGCAGGTGGACGATTG
Basic information
| species | Glycine max |
| transcript | GLYMA03G01600.1 |
| intron # | 2 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01600.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G01790.1 (Arabidopsis thaliana), 3'ss of exon 9
--tgttaaatgcttgattgaaagccaatgacttcaccttacttctctcattgtcatcatcatctatgttgtctttttgtgaaataccaatctctgtttccagGTTGGTTTCCAAGCCATTGCTGAAGCTCTTGGTCTGGCTGCTGTCAAGGCAGTGGTTGCTATTTCAGCCATAATTGCAGGTGGACGATTG
||| || ||| | | | |||| | ||| |||| | | | | ||| || | | || || | | | || ||| ||| |||| || ||||||||||||||||||||||| || ||||| ||||| |||| || |||||| | || |||||||| ||||| || |
ctggttgaaa--ttgctggtatgccagatatttctatatactcaaggaagtctaggaaatatcagtggtcgcaaaatgctaagtttctactgctcttttcagATTGGATTTCAAGCCATTGCTGAAGCTCTTGGGCTTGCTGCAGTCAAAGCAGCAGTGGCTATTACTGCAATAATTGCTGGTGGCCGTCTA
upper sequence: GLYMA03G01600.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 8
tgttaaatgcttgattgaaagccaatgacttcaccttacttctctcattgtcatcatcatctatgttgtcttt------ttgtgaaataccaatctctgtttccagGTTGGTTTCCAAGCCATTGCTGAAGCTCTTGGTCTGGCTGCTGTCAAGGCAGTGGTTGCTATTTCAGCCATAATTGCAGGTGGACGATTG
||| | | | | || ||| | || ||||| | || | ||| |||| | | | | | || || || ||| |||| || ||||||||||||||||||||||| || ||||| |||| |||| |||||||| | | ||||||||| ||||| || |
---ctcatgtgttgctaatatttgctgtcttg--catatttctcaaggaagc-ctataaattattttgtaagaggagaatgctaagttgctaactacttttctcagATTGGATTTCAAGCCATTGCTGAAGCTCTTGGACTAGCTGCAATCAAAGCAGCAGTTGCTATCACTGGCATAATTGCTGGTGGCCGTCTC
upper sequence: GLYMA03G01600.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 7
tgttaaatgc-ttgattgaaagccaatgacttcacct--tacttctctcattgtcatcatcatctatgttgtctttttgtgaaataccaatctctgtttccagGTTGGTTTCCAAGCCATTGCTGAAGCTCTTGGTCTGGCTGCTGTCAAGGCAGTGGTTGCTATTTCAGCCATAATTGCAGGTGGACGATTG
| | |||| ||||| | || ||| | ||| || | | || || | | | || | || | |||| ||||||| ||| ||||||| |||||||||||||||||||| || ||||||||||| |||||| | ||||| ||| | ||||||||||| |||||||| |||
ttctccatgcgttgatcatgcttctttgttgtcagttgtcactactattactgctgcttctattcttatgttgttatcatg--gcaacaat-tctgttttcagATTGGTTTTCAAGCCATTGCTGAAGCTCTCGGACTGGCTGCTGTTAAGGCATTAGTTGCCATTGCTGCCATAATTGCTGGTGGACGCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattgtcatcatcatctatgttgtctttttgtgaaataccaatctctgtttccagGTTGGTTTCCAAGCCATTGCTGAAGCTCTTGGTCTGGCTGCTGTCAAGGCAGTGGTTGCTATTTCAGCCATAATTGCAGGTGGACGATTG
tctctgtttcc CT-rich tract
tcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttaaatgcttgattgaaagccaatgacttcaccttacttctctcattgtcatcatcatctatgttgtctttttgtgaaataccaatctctgtttccagGTTGGTTTCCAAGCCATTGCTGAAGCTCTTGGTCTGGCTGCTGTCAAGGCAGTGGTTGCTATTTCAGCCATAATTGCAGGTGGACGATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - -tgcttga
- - - - - - - - - - -ccaatga
- - - - - - - - - - - - - - cttcacc
- - - - - - - - - - - - - - - - - - - - - - - - tgtcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaatac
