Sequence
atgc intronic sequence ATGC exonic sequence...ggagaatgtttttgcttatagatacacaaatggttagtcagttaccgtatatatttgcctttcactttgttggagctcataatattaactttatttccagGCACTTTCCAGCAAATCAGCCTTTCAGAGGCATAAGCAGTGGTTGCAACATGCTAAAACACGTAGTGCAAGACACAAAATAATGAAG
Basic information
species | Glycine max |
transcript | GLYMA19G40050.1 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G40050.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os03g22160.1 (Oryza sativa), 3'ss of exon 19
ggagaatgtttttgcttatagatacacaaatggttagtcagtt---accgtatatatt-tgcctttcac-tttgttggagctcataatattaactttatttccagGCACTTTCCAGCAAATCAGCCTTTCAGAGGCATAAGCAGTGGTTGCAACATGCTAAAACACGTAGTGCAAGACACAAAATAATGAAG
| | | | || | | || || || | | |||||| | ||| | || | || | ||||| | || |||| || | | || |||| || || ||| | || |||||||| | |||||||| ||||| || ||||||||||||||||| |||||
----cttttatccatcaagaggattctagagaactattccattggcattgcttatattatacctgtgacatccatttaaactcatctgccttttcttgtttc-agAAATTATCTGCTAAATATGCATTCCAGCGTCACCAGCAGTGGCTTCAACATGCGAAAACTCGCAGTGCAAGACACAAAATTATGAAA
upper sequence: GLYMA19G40050.1 (Glycine max), 3'ss of exon 19
lower sequence: AT4G02260.3 (Arabidopsis thaliana), 3'ss of exon 19
-------------------------ggagaatgtttttgcttatagatacacaaatggttagtcagttaccgtatatatttgcc---tttcactttgttggagctcataatattaactttatttc-cagGCACTTTCCAGCAAATCAGCCTTTCAGAGGCATAAGCAGTGGTTGCAACATGCTAAAACACGTAGTGCAAGACACAAAATAATGAAG
| | ||| | | | | | || |||| | | | | || | || ||| | | | || ||||| | | || ||||| || || || ||||| || || || || ||||| ||||||||||||||||| |||||| | |||||||||||||| || |||| |
gtttgtacctttttcccttgcttttgttttaaatttctcccttttcttcttgtcctgcttaggaaaattttgattgccttcatcatgttccacgggctctcatgttttattattattgtcacatcacagGCCCTCTCAAGTAAATCTGCTTTCCAAAGACATAAACAGTGGTTGCAACATGCCAAAACAAGGAGTGCAAGACACAAGATTATGAGG
upper sequence: GLYMA19G40050.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv07s0005g00770.t01 (Vitis vinifera), 3'ss of exon 19
-ggagaatgtttttg---ctta--tagatacac--aaatggttagtcagtt-accgtatatatttgcctttcactttgttggagctcataatattaactttatttccagGCACTTTCCAGCAAATCAGCCTTTCAGAGGCATAAGCAGTGGTTGCAACATGCTAAAACACGTAGTGCAAGACACAAAATAATGAAG
|| || || || |||| | | | || |||| | || ||| ||| ||| || | || ||| ||||||| | | | |||| ||||||||| || |||||||| || || |||||||||||||||||||| |||||||| ||||| |||||||| | ||||| || |||||
tggttgctgcttctgaagcttactttgctgcatctgcatggatcatctgtttaccatatgcatcttccaatca-tttgttgctg-----ggtccttgtttta---ccagGCACTCTCAAGCAAATCTGCTTTCCAGAGGCATAAGCAGTGGTTACAACATGCAAAAACCCGTAGTGCCCGGCACAAGATCATGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgtatatatttgcctttcactttgttggagctcataatattaactttatttccagGCACTTTCCAGCAAATCAGCCTTTCAGAGGCATAAGCAGTGGTTGCAACATGCTAAAACACGTAGTGCAAGACACAAAATAATGAAG
tattaac putative branch site (score: 1)
ctttatttcc CT-rich tract
tcataatattaacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggagaatgtttttgcttatagatacacaaatggttagtcagttaccgtatatatttgcctttcactttgttggagctcataatattaactttatttccagGCACTTTCCAGCAAATCAGCCTTTCAGAGGCATAAGCAGTGGTTGCAACATGCTAAAACACGTAGTGCAAGACACAAAATAATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - tgcttat
- - - - - - - - - - - -acacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gttggag