Sequence
atgc intronic sequence ATGC exonic sequence...tttatactcggacaaattcaagaaaattgttgcaattgtattgaattgtcatacactagtgattaacatcttacatatttatacttcaaaaaaatatcagGTGCTTGTTAGAAATATTCCACCCGACCCTGATGAATCTGTGAGTGAGCTTGTTGAGCACTTCTTTCTGGTCAATCATCCAGGTCACTATCTGACTCACC
Basic information
species | Glycine max |
transcript | GLYMA13G10490.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G10490.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G163334_T01 (Zea mays), 3'ss of exon 3
-------------------------------------------------------------------------------------------tttatactcggacaaattcaagaaaattgttgcaattgtattga---attgtcatacactagtgat-taacatcttacatatttatacttcaaaa--aaatatcagGTGCTTGTTAGAAATATTCCACCCGACCCTGATGAATCTGTGAGTGAGCTTGTTGAGCACTTCTTTCTGGTCAATCATCCAGGTCACTATCTGACTCACC
| || | | | | || | || || | | | ||| | || | || | | | || | || || |||| | | | || | |||| ||||| | ||||| || || || || |||||||| | ||||||||||| || || |||||||| || |||||||| |||||||||||||| || |
gtatgactaacctatgattgagttatgccttgaacacatagtgctatccagacacttaaagttgaaatttgtactgttactgcatttcacatagattttgaggcgagaacacgtttcttttttcccctaaactgatcaagtggattttgttatgggtatgacttgttgtatgcgcttactcaatgattatattttagGTCCTTGTGCGGAATATACCGCCTGATCCAGATGAATCAATTAGTGAGCTTGTGGAACATTTCTTTCTTGTGAATCATCCTGGTCACTATCTGACACATC
upper sequence: GLYMA13G10490.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G021194_T01 (Zea mays), 3'ss of exon 4
-------------------------------------------------------------------------------------------tttatactcggacaaattcaagaaaattgttgcaattgtattgaattgtcatacactagtgat-------taacatcttacatatttatacttcaaaaaaatatc--agGTGCTTGTTAGAAATATTCCACCCGACCCTGATGAATCTGTGAGTGAGCTTGTTGAGCACTTCTTTCTGGTCAATCATCCAGGTCACTATCTGACTCACC
| || | | | | || | || || | | | ||| | | || | | || | | || |||| | | |||| |||| ||||| | ||||| || || || || |||||||| | ||||||||||| || || |||||||| || |||||||| |||||||||||||| || |
gtatgactaacctatgattgagttatgccttgaacacatagtgctatccagatacttaaagttgaaatttgtactgttactgcatttcacatagattttgaggcgagaacacgtttcttttttcccctaaactgatcaagtggattttgttgttatgggtatgacttgctgtatgcgcttactcaatgattatattttagGTCCTTGTGCGGAATATACCGCCTGATCCAGATGAATCAATTAGTGAGCTTGTGGAACATTTCTTTCTTGTGAATCATCCTGGTCACTATCTGACACATC
upper sequence: GLYMA13G10490.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 3
tttatactcggacaaattcaagaaaattgttgcaattgtattgaattgtcatacactagtgattaacatcttacatatttat--acttcaaaaaaatatcagGTGCTTGTTAGAAATATTCCACCCGACCCTGATGAATCTGTGAGTGAGCTTGTTGAGCACTTCTTTCTGGTCAATCATCCAGGTCACTATCTGACTCACC
| | | | | | | | | |||| ||| | | || | | | | | | | | | || || | | ||||| |||||||| ||| | || || ||| | ||||||||||| ||||||||||| ||||| || || |||||||||||| ||| | ||||||| ||||| |
--ttcatttaggtttactagttatacagctccaaattatatattttcatgattccttccttttcattgccatgtttgtgtaatggattttggttatttgcagGTCCTTGTTAGGAATGTGCCCCCAGACGCAGATGAATCTGTTAGTGAGCTTGTGGAGCATTTTTTCCTGGTCAATCATTCAGATAACTATCTTACTCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtcatacactagtgattaacatcttacatatttatacttcaaaaaaatatcagGTGCTTGTTAGAAATATTCCACCCGACCCTGATGAATCTGTGAGTGAGCTTGTTGAGCACTTCTTTCTGGTCAATCATCCAGGTCACTATCTGACTCACC
attaacatcttacata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttatactcggacaaattcaagaaaattgttgcaattgtattgaattgtcatacactagtgattaacatcttacatatttatacttcaaaaaaatatcagGTGCTTGTTAGAAATATTCCACCCGACCCTGATGAATCTGTGAGTGAGCTTGTTGAGCACTTCTTTCTGGTCAATCATCCAGGTCACTATCTGACTCACC
- - - - - - - - - -aagaaaa
- - - - - - - - - - - - - -tgttgca
- - - - - - - - - - - - - - - - - - - - - - - - -catacac