Sequence
atgc intronic sequence ATGC exonic sequence...tactagtttttaattgttcatgtggcatatttcctacatagtatttctctaattatatctggtatccacatgttaccataacatcattttcttgtcacagAGCAAGTCAAAAGCAGAGAAGAATCAAGCAATGGAGCATTCAATGAGTGAGAACTCCTGTCAATTGTGTGCTGTTGAGAAGCTTACCTTTGAACCACCGC
Basic information
species | Glycine max |
transcript | GLYMA08G24290.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G16710.2 (Arabidopsis thaliana), 3'ss of exon 7
--------tactagtttttaattgttcat---gtggcatat---ttcctacat----agtatttctctaattat---atctggtatccacatgttaccataacatcattttcttgt-cacagAGCAAGTCAAAAGCAGAGAAGAATCAAGCAATGGAGCATTCAATGAGTGAGAACTCCTGTCAATTGTGTGCTGTTGAGAAGCTTACCTTTGAACCACCGC
| || || || ||| | | ||| | ||| || || | |||||| ||| ||| || | | || ||| | || ||| ||||| || | |||||||| |||||||| ||||||||| |||||||||||||||| ||||| || || ||||| || ||||||||||| ||||| ||||| |
gtttgctattttatttacaaaaagtttacagagaagcaagtctattcatatatctaagatgaatctctagctatgtgatcattgatgaataccttgtcatttaaattttaatgtgtgtgcagAGTAAAGCCAAAGCAGAAAAGAATCAGGCAATGGAGAATTCAATGAGTGAGAATTCCTGCCAGTTATGTGCGGTGGAGAAGCTTACATTTGAGCCACCAC
upper sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G79000.1 (Arabidopsis thaliana), 3'ss of exon 7
tactagtttttaattgttcatgtggcatatttcctacatagtatttctcta-attatatctggtatccacatgttaccataacatcattttcttgt---cacagAGCAAGTCAAAAGCAGAGAAGAATCAAGCAATGGAGCATTCAATGAGTGAGAACTCCTGTCAATTGTGTGCTGTTGAGAAGCTTACCTTTGAACCACCGC
|| | | | || || || | || | | | |||| || | ||| ||||| || | || | | | | ||| ||| ||||| || | |||||||| |||||||| |||||||||||||||||||||||||| ||||| ||| | ||||| || ||||||||||||||||| ||||| |
--ctgcagtatgaggcttgat-tgagctgttccgttaaacacatttttccatattttatctaa-atagatatttgattaatgattgtccttcatgtgcttgcagAGTAAAGCCAAAGCAGAAAAGAATCAGGCAATGGAGCATTCAATGAGTGAGAATTCCTGCCAACTATGTGCAGTGGAGAAGCTTACCTTTGAGCCACCAC
upper sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 5
tactagtttttaattgttcatgtggcatatttcctacatagtatttctctaattatatctggtatccaca-tgttaccataacatcattttcttgtcacagAGCAAGTCAAAAGCAGAGAAGAATCAAGCAATGGAGCATTCAATGAGTGAGAACTCCTGTCAATTGTGTGCTGTTGAGAAGCTTACCTTTGAACCACCGC
| ||| ||| || | || | ||| | | ||| | | | ||| | | || | | | || || ||| | |||||||| | || ||||| ||||||||||||||||||| ||| |||||||||||||| ||||| ||||||| |||||||||||||| |||||||| || |
tggctgttgagaatgatttttctgttttgtttttatttttattttttatgtactttgtctaggtttggtggtgattttttttcctc-ttccctttttctagAGCAAGGCCAAGGCAGAAAAGAATCAAGCAATGGAGCGTTCGATGAGTGAGAACTCTTGTCAGCTGTGTGCAGTTGAGAAGCTTACTTTTGAACCTCCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctctaattatatctggtatccacatgttaccataacatcattttcttgtcacagAGCAAGTCAAAAGCAGAGAAGAATCAAGCAATGGAGCATTCAATGAGTGAGAACTCCTGTCAATTGTGTGCTGTTGAGAAGCTTACCTTTGAACCACCGC
ccataac putative branch site (score: 3)
tcattttctt CT-rich tract
aattatatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tactagtttttaattgttcatgtggcatatttcctacatagtatttctctaattatatctggtatccacatgttaccataacatcattttcttgtcacagAGCAAGTCAAAAGCAGAGAAGAATCAAGCAATGGAGCATTCAATGAGTGAGAACTCCTGTCAATTGTGTGCTGTTGAGAAGCTTACCTTTGAACCACCGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - -tcatgtg
- - - - - - - - - - - - - - - -tcctaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atccaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttacc