Sequence
atgc intronic sequence ATGC exonic sequence...tctaaaaattgtttcagtggctctctggatattctaattaacttattttcaccttttctggacattgatcatctcatttggggcctgagctgttatgtagTTATCCAAGGTGCTGGTGGAATGCATATGGTTGATCCACTTTTTCAGCGTGTGCTTGTTAATGAGTGTCGGAGTAGAAAAATTCCAGTAATCTTTGATGA
Basic information
species | Glycine max |
transcript | GLYMA13G01170.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G01170.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G57590.1 (Arabidopsis thaliana), 3'ss of exon 9
------------------------------------tctaaa--aattgt-ttcagtggctctctggatattctaattaacttattttcaccttttctggacattgatcatctcatttggggcctgagctgttatgtagTTATCCAAGGTGCTGGTGGAATGCATATGGTTGATCCACTTTTTCAGCGTGTGCTTGTTAATGAGTGTCGGAGTAGAAAAATTCCAGTAATCTTTGATGA
| ||| || | | |||||| | | | || | ||| || | | | || | | | || | | ||| | | | | || ||| || || |||||||| |||||||||||||||||||| ||||| || || || | || |||||||| |||| ||||||||||||||| || || |||||
gtacactcgccagtatgacttcacatagtttacgtatgtaacttaactatattcagtaagttta-gcatccttggtttatctagctagattgctatatgcaaactactc-ttttattaagttggcggttttatctgcagTAATTCATGGTGCTGGGGGAATGCATATGGTTGATCCGCTTTTCCAACGAGTTTTGGTGAATGAGTGCCGGAATAGAAAAATTCCAGTCATTTTCGATGA
upper sequence: GLYMA13G01170.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv11s0052g01390.t01 (Vitis vinifera), 3'ss of exon 9
tctaaaaattgtttcagtg-gctctctggat-attctaattaacttattttcaccttttctggacattgatcatctcatttggggcctgagctgttatgtagTTATCCAAGGTGCTGGTGGAATGCATATGGTTGATCCACTTTTTCAGCGTGTGCTTGTTAATGAGTGTCGGAGTAGAAAAATTCCAGTAATCTTTGATGA
|| | | | || |||| | | | || | | | | || |||| | | | |||| || ||||| | |||| | || ||| ||||||||||||||||| |||||||||||||||| | || ||||| ||||||||||| || |||||||||| || |||||||||||
cctggatgggccgggattaagccatctgattcagtgtactctattgagtt--acctgatagtgtttccaagtatctacttcaataatgtttctgtttttcagTTGTACATGGTTCTGGTGGAATGCATATGATTGATCCACTTTTTCAAAGAGTACTTGTGAATGAGTGTCGAAGCCGAAAAATTCCTGTTATCTTTGATGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcaccttttctggacattgatcatctcatttggggcctgagctgttatgtagTTATCCAAGGTGCTGGTGGAATGCATATGGTTGATCCACTTTTTCAGCGTGTGCTTGTTAATGAGTGTCGGAGTAGAAAAATTCCAGTAATCTTTGATGA
cattgat putative branch site (score: 4)
ttatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctaaaaattgtttcagtggctctctggatattctaattaacttattttcaccttttctggacattgatcatctcatttggggcctgagctgttatgtagTTATCCAAGGTGCTGGTGGAATGCATATGGTTGATCCACTTTTTCAGCGTGTGCTTGTTAATGAGTGTCGGAGTAGAAAAATTCCAGTAATCTTTGATGA
- - - - - - ttcagtg
- - - - - - - - - - - ctctgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggcctga