Sequence
atgc intronic sequence ATGC exonic sequencegtacgtatgttattttctattatatttgagagtagaaagtgttagttttaagagacataaattttcattgactggtgtggaatatttggtttgttttgttttagGTGAAGGATTATATTGCAACCCCTAAACCAAATGGCTACCAGAGTCTTCAGACCACTGTGATTCCATTTTTGTATGAGAGCATGTTTAGGCTAGAAGTCC
Basic information
species | Glycine max |
transcript | GLYMA03G37450.1 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G37450.1 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os03g22160.1 (Oryza sativa), 3'ss of exon 14
gtacgtatgttattttctattatatttgagagtagaaagtgttagttttaagagacataaattttcattgactgg--tgtggaatatttggtttgttttgttttagGTGAAGGATTATATTGCAACCCCTAAACCAAATGGCTACCAGAGTCTTCAGACCACTGTGATTCCATTTTTGTATGAGAGCATGTTTAGGCTAGAAGTCC
| |||| | || | ||| |||| |||| | | | | || || | | | |||||||| ||||| ||||||||||| || || ||||| ||||| ||||| || || || ||||| |||||| || ||||||| ||||| | ||||| |
---------------------------gtgagtt--atctgctttccttattcattataatttttacctcttttgattttgccatttctaaaagccagctgtatagGTGAAAGATTACATTGCAACCCCAAAGCCTAATGGATACCAAAGTCTACACACGACAGTGATACCATTTCTGAATGAGAGTATGTTCCATTTGGAAGTTC
upper sequence: GLYMA03G37450.1 (Glycine max), 3'ss of exon 16
lower sequence: AT4G02260.3 (Arabidopsis thaliana), 3'ss of exon 14
gtacgtatgttattttctattatatttgagagtagaaagtgtta-gttttaagagacataaattttcattgactggtgtggaatatttggtttgttttgttttagGTGAAGGATTATATTGCAACCCCTAAACCAAATGGCTACCAGAGTCTTCAGACCACTGTGATTCCATTTTTGTATGAGAGCATGTTTAGGCTAGAAGTCC
| ||| | | || ||| | | ||| || || | | ||| ||| || || || |||| || ||||| ||||||||||| || || ||||| |||||||| || || || |||||||||||||| ||||||||||| |||||| | || || || |
---------------------------gtatgtatcagatcttttgttattcaggttatatcttatc-tacattgggactgaacatatgtcttac--------agGTAAAAGATTACATTGCAACCCCGAAGCCCAATGGATACCAGAGCCTCCATACTACTGTGATTCCATTCTTGTATGAGAGTATGTTTCGACTGGAGGTTC
upper sequence: GLYMA03G37450.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv07s0005g00770.t01 (Vitis vinifera), 3'ss of exon 14
gtacgtatgttattttctattatatttgagagtagaaagtgttagttttaagagacataaattttcattgactggtgtggaatatttggtttgttttgttttagGTGAAGGATTATATTGCAACCCCTAAACCAAATGGCTACCAGAGTCTTCAGACCACTGTGATTCCATTTTTGTATGAGAGCATGTTTAGGCTAGAAGTCC
|| ||| || ||| | ||||| | | | | | || ||||| || | || ||||||| ||| ||||| || |||| || ||||||||||| || ||||| |||||||| || ||||| || || ||||| ||||||||| | ||||||||||||||| | || ||||| |
gtgtgtactttgctttgcacatcctttgaaatttgcttctaatttaagtatcagacaaaatgactagtttttctagaaataatattttattt-ttttgcaacagATGAAAGACTATATTGCAACTCCAAAACCTAATGGCTATCAAAGTCTCCATACAACTGTAATTCCATTTCTTTATGAGAGCATGTTTCGACTGGAAGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagagacataaattttcattgactggtgtggaatatttggtttgttttgttttagGTGAAGGATTATATTGCAACCCCTAAACCAAATGGCTACCAGAGTCTTCAGACCACTGTGATTCCATTTTTGTATGAGAGCATGTTTAGGCTAGAAGTCC
cattgac putative branch site (score: 3)
ttttgtttt putative PPT
acataaattttcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtatgttattttctattatatttgagagtagaaagtgttagttttaagagacataaattttcattgactggtgtggaatatttggtttgttttgttttagGTGAAGGATTATATTGCAACCCCTAAACCAAATGGCTACCAGAGTCTTCAGACCACTGTGATTCCATTTTTGTATGAGAGCATGTTTAGGCTAGAAGTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT