Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgctggctccaaagaattcattggcatagtatctgaaaaaaatttctataccttctgttcaacagtaaatgacttactttaattcttaatttagGTTCTAAGGTATCTACTTTCGAATGCACGATGGTGGCTGGATGAATACAAGTTTGATGGATTTCGATTTGATGGTGTTACATCAATGATGTACACACATC
Basic information
species | Glycine max |
transcript | GLYMA19G37750.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G37750.2 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os02g32660.1 (Oryza sativa), 3'ss of exon 12
gtaagtgctggctc---caaagaattcattggcatagtatctgaaaaaaatttctataccttctgttcaacagtaaatgact-tactttaattcttaatttagGTTCTAAGGTATCTACTTTCGAATGCACGATGGTGGCTGGATGAATACAAGTTTGATGGATTTCGATTTGATGGTGTTACATCAATGATGTACACACATC
||||| | | | | || || |||||| | ||| ||| | || || | || || | | ||| || |||| | |||||||||| | |||||| || |||||| |||||||||| || || || ||||||||||| || ||||||| ||||| || |||||||||||||| ||||
gtaaggaacacgttaatcgctacttccctttacaaagtatc-----attattcatatgcattaatctctattgtgtttgccaacatttttatcctta-tacagGTTCTAAGATTTCTACTATCCAATGCAAGATGGTGGCTCGAGGAGTATAAGTTTGATGGTTTCAGATTTGACGGTGTAACCTCAATGATGTACACTCATC
upper sequence: GLYMA19G37750.2 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G032628_T01 (Zea mays), 3'ss of exon 12
gtaagtgctggctccaaagaattcattggcatagtatctgaaaaaaatttctataccttctgttcaacagtaaatgacttactttaattcttaatttagGTTCTAAGGTATCTACTTTCGAATGCACGATGGTGGCTGGATGAATACAAGTTTGATGGATTTCGATTTGATGGTGTTACATCAATGATGTACACACATC
|| | | ||| | || ||| | | ||| || || | | | | |||| || || ||||| |||| | ||| || || ||||| |||||||||| || ||||| ||||||||||| || || ||||||||||| || || ||||||||||| ||||
----gtacggaacaaaaatgctctatctccattaatttt-------attctcctatttttctgcctgtatcgttccaacaatttta--tccgtatgcagGTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAGTTTGATGGTTTCCGTTTTGATGGTGTGACCTCCATGATGTACACTCATC
upper sequence: GLYMA19G37750.2 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 12
gtaagtgctggctccaaagaattcattggcatagtatctgaaaaaaatttctataccttctgttcaacagtaaatgacttactttaattcttaatttagGTTCTAAGGTATCTACTTTCGAATGCACGATGGTGGCTGGATGAATACAAGTTTGATGGATTTCGATTTGATGGTGTTACATCAATGATGTACACACATC
| |||| ||| | | | | | || | ||| | | | | | || || | || | || | ||||| | || | |||| | || ||||| |||||||||| || ||||| || |||||||| |||||||||||||| || || || |||||||| || || |
-----------------gtatgtcatgtgcagaatgtattagctaatagttcatatttattttctatacacacataac--aattcattttgtg---cagGTTTTGAGATTTCTATTGTCAAATGCGAGATGGTGGCTTGAAGAATATAAATTTGATGGGTTTCGATTTGATGGGGTGACCTCCATGATGTATACTCACC
upper sequence: GLYMA19G37750.2 (Glycine max), 3'ss of exon 12
lower sequence: AT2G36390.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaagtgctggctccaaagaattcat-tggcatagtatctgaaaaaaattt----------ctatacc-----ttctgttcaacagtaaatgacttac-tttaattctta---atttagGTTCTAAGGTATCTACTTTCGAATGCACGATGGTGGCTGGATGAATACAAGTTTGATGGATTTCGATTTGATGGTGTTACATCAATGATGTACACACATC
||| || || ||| ||| || || | ||| | | || ||| || | || | || ||| | | | || ||| | ||| |||||||| || |||||||| ||||| || || ||||||||||||| ||||||||||||||||| || ||||||||||||| || || ||||||||||| ||||
gtatgt-ctctttccgtagagttgatattgcaatatttatgggaaagcctttagtgtagccccatgctggtggttatgtctggtccttgtgtattgacgtttggtccttgtgtatttagGTGCTTAGGTATCTTCTTTCCAACGCGAGATGGTGGCTGGAAGAATACAAGTTTGATGGGTTCAGATTTGATGGTGTGACTTCCATGATGTACACTCATC
upper sequence: GLYMA19G37750.2 (Glycine max), 3'ss of exon 12
lower sequence: AT5G03650.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaagtgctggctccaaagaattcattggcata-gtatctgaaaaa-aatttctataccttctgttcaacagtaaatgacttactttaattcttaatttagGTTCTAAGGTATCTACTTTCGAATGCACGATGGTGGCTGGATGAATACAAGTTTGATGGATTTCGATTTGATGGTGTTACATCAATGATGTACACACATC
||| || | | | || | | | | | ||| | | | || ||| || || | || || | || || | | || |||| || | ||||| ||||| |||||||| |||||||| || ||||||||||||||||||||| ||||||||||||| || ||||||||||| || ||||
gtatgtaactttttcgtgaattttaatcgaaaatgtagtgaacatacaacttccttaagcactat-cagttccaacagtctcttttgatcttttctaacagGTATTACGATATCTCCTTTCAAATGCACGGTGGTGGCTAGAAGAATACAAGTTTGATGGATTTAGATTTGATGGTGTAACCTCAATGATGTATACTCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatttctataccttctgttcaacagtaaatgacttactttaattcttaatttagGTTCTAAGGTATCTACTTTCGAATGCACGATGGTGGCTGGATGAATACAAGTTTGATGGATTTCGATTTGATGGTGTTACATCAATGATGTACACACATC
ttctt CT-rich tract
taaatgacttacttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgctggctccaaagaattcattggcatagtatctgaaaaaaatttctataccttctgttcaacagtaaatgacttactttaattcttaatttagGTTCTAAGGTATCTACTTTCGAATGCACGATGGTGGCTGGATGAATACAAGTTTGATGGATTTCGATTTGATGGTGTTACATCAATGATGTACACACATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA