Sequence
atgc intronic sequence ATGC exonic sequencegtaagacttctattgttttctttctgctcgaaatagcattattgatatcggaagacaatattgaactctgcaggccaagtgtatatgcaatccatgctaataatgtcctattaaatctgacgtgtttttattccttttgttttttcttctgcagCTGTAGGCTTGGTGAATGCAGGATTATTTTATGTGAAGCAGGTGCCAAGCACAGGTGGCAAAAATTGCAGCTTAATTTCCCGAG
Basic information
species | Glycine max |
transcript | GLYMA15G03900.1 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G03900.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv13s0175g00030.t01 (Vitis vinifera), 3'ss of exon 3
gtaagacttctattgttttctttctgctcgaaatagcattattgatatcggaagacaatattgaactctgcaggccaagtgtatatgcaatccatgctaataatgtcctat-taaatctgacgtgtttttattccttttgttttttcttctgcagCTGTAGGCTTGGTGAATGCAGGATTATTTTATGTGAAGCAGGTGCCAAGCACAGGTGGCAAAAATTGCAGCTTAATTTCCCGAG
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----------------------------------------------------------ttgcaaaaattaaaataggagcttatatagaatgtgttcttgtaatcttcttcacaaaactgaa----tgctgcttatcttgttggtttttgggcagttgtaagCTTGGTGAATGCAGAATCATTCTATGTGAAGCAGGAGCTACGCATAGGTTGCAGAAGTTGCAGCTCAATTTTCCAAG
upper sequence: GLYMA15G03900.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv06s0004g02050.t01 (Vitis vinifera), 3'ss of exon 15
gtaagacttctattgttttctttctgctcgaaatagcattattgatatcggaagacaatattgaactctgcaggccaagtgtatatgcaatccatgctaataatgtcctat-taaatctgacgtgtttttattccttttgttttttcttctgcagCTGTAGGCTTGGTGAATGCAGGATTATTTTATGTGAAGCAGGTGCCAAGCACAGGTGGCAAAAATTGCAGCTTAATTTCCCGAG
| ||| ||| | | || ||| || ||||| ||| | || ||| | || ||| |||| | | | | ||||| || || |||| |||| ||||||||||||||| || ||| ||||||||||||| || ||||| |||| ||| || |||||||| ||||| || ||
---------------------------------------------tgcaggattgcaaaaattaaa---atagg---agcttatatagaatgtgttcttgtaaccttcttcacaaaactgaa----tgctgcttatcttgttggtttttgggcagTTGTAAGCTTGGTGAATGCAGAATCATTCTATGTGAAGCAGGAGCTAAGCATAGGTTGCAGAAGTTGCAGCTCAATTTTCCAAG
upper sequence: GLYMA15G03900.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv06s0004g00530.t01 (Vitis vinifera), 3'ss of exon 14
gtaagacttctattgttttctttctgctcgaaatagcattattgatatcggaagacaatattgaactctgcaggccaagtgtatatgcaatccatgctaataatgtcctat-taaatctgacgtgtttttattccttttgttttttcttctgcagCTGTAGGCTTGGTGAATGCAGGATTATTTTATGTGAAGCAGGTGCCAAGCACAGGTGGCAAAAATTGCAGCTTAATTTCCCGAG
| | ||| ||| | | || ||| || ||||| ||| | || |||| | || ||| |||| | | | | ||||| || || |||| |||| ||||||||||||||| || ||| ||||| ||||||| || ||||| |||| ||| || |||||||| ||||| || ||
---------------------------------------------tgtaggattgcaaaaattaaa---atagg---agcttatatagaatgtgttcttgtaatcttcttcacaaaactgaa----tgctgcttatcttgttggtttttgggcagTTGTAAGCTTGGTGAATGCAGAATCATTCTATGTTAAGCAGGAGCTAAGCATAGGTTGCAGAAGTTGCAGCTCAATTTTCCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataatgtcctattaaatctgacgtgtttttattccttttgttttttcttctgcagCTGTAGGCTTGGTGAATGCAGGATTATTTTATGTGAAGCAGGTGCCAAGCACAGGTGGCAAAAATTGCAGCTTAATTTCCCGAG
cgtgtttttattcctt CT-rich tract
tttttattccttttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagacttctattgttttctttctgctcgaaatagcattattgatatcggaagacaatattgaactctgcaggccaagtgtatatgcaatccatgctaataatgtcctattaaatctgacgtgtttttattccttttgttttttcttctgcagCTGTAGGCTTGGTGAATGCAGGATTATTTTATGTGAAGCAGGTGCCAAGCACAGGTGGCAAAAATTGCAGCTTAATTTCCCGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT