Sequence
atgc intronic sequence ATGC exonic sequence...taaatgttgaacttatgcctttttaatctagtcaaaaaattgtatctaattttaagtcaaggccaaagagttaatattaaaattctcttttctcatgtagGCTAATGACATAGCTGATTTTCATGCTAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTTTATCAG
Basic information
species | Glycine max |
transcript | GLYMA11G14000.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G14000.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0004g01650.t01 (Vitis vinifera), 3'ss of exon 4
-------taaatgttgaacttatgcctttttaatctagtcaaaaaattgtatctaattttaagtcaaggccaaagagttaatattaaaattctcttttct-catgtagGCTAATGACATAGCTGATTTTCATGCTAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTTTATCAG
|| || | |||| || || ||| || | || || || || | || | | || | | || |||||| | |||||||| |||||||| ||| |||||||| ||||||||||||||| ||||||||||| |||||||||||||||||||||| || |||||||||||| ||
atcatagtatattcatattttatatgttgtttttcttgttgg-----tttagctgccttcaactgaaa---cattacttcgcaaagcgttcctattttctgcttgtagGCTGATGACATATCTGGATTTCATGCCAATACACATATCCCAATTGTTGTTGGAGCTCAAATGCGGTATGAAATCACTGGTGATCCACTTTATAAG
upper sequence: GLYMA11G14000.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 4
taaatgttgaact-tatgcctttttaatctagtcaaaaaattgtatctaattttaagtcaaggccaaagagt-taatattaaaattctcttttctcatgtagGCTAATGACATAGCTGATTTTCATGCTAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTTTATCAG
| || | | ||| | ||| || || | | | | || || || | | | | | | | || | |||| | |||||||| || |||| ||| ||||||||| ||||||||||||||||||||| ||||||| ||||||||||||||| |||| || ||||||||||| ||
--atggtcatagtatatccacatttgatatattttttcttgtttttttagcttccttccatttcagcattacatcacaaaatatttttatttttgcttgtagGCTGATAGCATATCTGGTTTTCATGCCAATACACATATCCCAGTTGTTATTGGATCCCAAATGCGGTATGAAGTCACTGGTGATCCACTTTACAAG
upper sequence: GLYMA11G14000.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S60_268V6.1 (Physcomitrella patens), 3'ss of exon 5
-taaatgttgaact-tatgcctttttaatctagtcaaaaaattgtatctaattt--taagtcaaggccaaagagttaatattaaaattctc---ttttctcatgtagGCTAATGACATAGCTGATTTTCATGCTAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTTTATCAG
|| | ||| || | | | | | | | | | | || | || |||| || | ||||| | | | | || ||| || || |||| || | | ||| ||||||| | ||||||||||| ||| ||||||||||| |||| ||||| ||||| | || |||||| | | ||
gtacttcttgctctatcttacagccaagttctgccctgaccacatgccaaagctgatacgtca----catacagttaggctgaggactgtcacgtttccttctgcagGCGGATCATCTTTCTGGTTTTCATTCGAATACACATATTCCAATTGTTGTTGGAGCTCAGATGCGTTATGAGGTGACCAGCGATCTAATCTACAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaattttaagtcaaggccaaagagttaatattaaaattctcttttctcatgtagGCTAATGACATAGCTGATTTTCATGCTAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTTTATCAG
ttctcttttctcatgt CT-rich tract
aaagagttaatattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaatgttgaacttatgcctttttaatctagtcaaaaaattgtatctaattttaagtcaaggccaaagagttaatattaaaattctcttttctcatgtagGCTAATGACATAGCTGATTTTCATGCTAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTTTATCAG
- - tgttgaa
- - - - - - -tatgcct
- - - - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaggcc