Sequence
atgc intronic sequence ATGC exonic sequence...aattctgacatttactttacccaataaaattattagtaattactcagttttttgagcatttatcaaaattcatccaatactcaattggactaccatttagGTTGGTGCTATTGAAGGGGATGAAGAGTTGACGCCTCTTGGGCATCATTTGGCTAAACTTCCTGTTGATGTGTTAATTGGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g00800.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GRMZM2G013283_T01 (Zea mays), 3'ss of exon 23
------------------------------aattctgacatttactttacccaataaaattattagtaattactcag----ttttttgagcatttatcaaaattcatccaa--tactcaattggactaccatt--------tagGTTGGTGCTATTGAAGGGGATGAAGAGTTGACGCCTCTTGGGCATCATTTGGCTAAACTTCCTGTTGATGTGTTAATTGGAAAG
|| | | || | | | | | || ||| | | | | || ||| | | || || ||| |||| | || || | ||| |||||||| ||| ||||||| ||||||||||| | ||||||||| ||||| |||| ||||| ||||||||||| || |||||||||
gttgtgttctctttcagtttattagcccgttatacatatatgcattgtgagaagcataactatgcatgacaatcttggcttttcttttggtagttctctggtctcaaccaaactctatggttatgctgctattgttttatctagGTTGGAGCTTTTGAAGGACATGAAGAGTTGTCACCTCTTGGGTATCATCTGGCGAAACTGCCTGTTGATGTTTTGATTGGAAAG
upper sequence: Vv12s0035g00800.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA17G00440.1 (Glycine max), 3'ss of exon 4
----aattctgacatttactttacccaataaaattattagtaattactcagttttttgagcatttatcaaaattcatccaatactcaattggactaccatttagGTTGGTGCTATTGAAGGGGATGAAGAGTTGACGCCTCTTGGGCATCATTTGGCTAAACTTCCTGTTGATGTGTTAATTGGAAAG
||| | || | | | | ||| ||| || | || | ||||| | | | || | || | | || || | | |||||||||||||| ||||||||||||| |||||||| || |||||||||||| |||| ||||||||||| |||||||||||||| |||
acgtaatcataacctgtttgtagtactatataat-atgatagatcaacatgttttcttatctttgtatacgtttgcttccat-tgaaaccaaaatgt--tttagGTTGGTGCTCTTGAAGGGGATGAGGAGTTGACACCACTTGGGCATCATCTGGCAAAACTTCCTGTGGATGTGTTAATTGGGAAG
upper sequence: Vv12s0035g00800.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: AT1G58060.1 (Arabidopsis thaliana), 3'ss of exon 24
--aattctgacatttactttacccaataaaattattagtaattactcagttttttgagcattt--atcaaaattcatccaatactcaattggactaccatttagGTTGGTGCTATTGAAGGGGATGAAGAGTTGACGCCTCTTGGGCATCATTTGGCTAAACTTCCTGTTGATGTGTTAATTGGAAAG
| ||| || | || | || || | ||| || | | ||| ||| ||| || | || | | | || | |||||||||||||| |||||||||||||||||||||| || |||||||||||||| || ||||||||||||||||||||||||||||||
ttagttccgattgatggaatatc-aactaagtagagagtt-ttgcatacctttgagagtttttttgtcctgagctttctcgtgtgaaccctgtcttc--tttagGTTGGTGCTGTTGAAGGGGATGAAGAGTTGACACCACTTGGGCATCATTTAGCCAAACTTCCTGTTGATGTGTTAATTGGAAAG
upper sequence: Vv12s0035g00800.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: AT1G58050.1 (Arabidopsis thaliana), 3'ss of exon 24
----aattctgacatttac-tttacccaataaaa-ttattagtaattactcagttttttgagcatttatcaaaattcatccaatactcaattggactaccatttagGTTGGTGCTATTGAAGGGGATGAAGAGTTGACGCCTCTTGGGCATCATTTGGCTAAACTTCCTGTTGATGTGTTAATTGGAAAG
| |||| || | | | || ||||| ||| ||| || | || | | | | | ||| | | | | || || ||||||| || ||| |||||||||| ||||||||||| || || || |||||||| || ||||||||||||||| ||||||||||||||
ctcaaccactgattttaatatccagtcagtaaaaactatgtgtatatatacctttgtatcttc-tctgctggtatttctttatgaacc--ctg---tattttttagGTCGGCGCTCTTGAAGGGGACGAAGAGTTGACACCACTAGGACATCATTTAGCAAAACTTCCTGTTGATTTGTTAATTGGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttttttgagcatttatcaaaattcatccaatactcaattggactaccatttagGTTGGTGCTATTGAAGGGGATGAAGAGTTGACGCCTCTTGGGCATCATTTGGCTAAACTTCCTGTTGATGTGTTAATTGGAAAG
atttatcaaaattcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattctgacatttactttacccaataaaattattagtaattactcagttttttgagcatttatcaaaattcatccaatactcaattggactaccatttagGTTGGTGCTATTGAAGGGGATGAAGAGTTGACGCCTCTTGGGCATCATTTGGCTAAACTTCCTGTTGATGTGTTAATTGGAAAG
- - ctgacat
- - - - - - - - - - - aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatcca