Sequence
atgc intronic sequence ATGC exonic sequence...atcttctgatgctaatcctaaatacatttacaaaatattgtcatttttctccttttaatttgtattaattattgctatgggtggtttgggttgttgacagTGACAGAGGCAGAAATGGATAGATTAAAGCATGCCTTGAAGCTTCTCTCAGAGGCTGAGAAACAACTAAGGGTTTCAAGTGAACGTTCAACATGGTTTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g01960.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G40180.1 (Glycine max), 3'ss of exon 4
-----------------------------------------------------------------------------atcttctgatgctaatcctaaatacat-ttacaaaatattgtcatttttctccttttaatt-tgta---ttaattattgct--atgggtggt---------ttgggtt--gttgacagTGACAGAGGCAGAAATGGATAGATTAAAGCATGCCTTGAAGCTTCTCTCAGAGGCTGAGAAACAACTAAGGGTTTCAAGTGAACGTTCAACATGGTTTAC
|| ||| | | | |||||| ||| || | || | || | || |||| || | | || || | ||| | | |||| || | |||||| | |||| |||| || |||||| |||| |||||||||||||||||||| |||||||| ||||| || |||||||| || |||||||| ||
gtgagtacaatccctgcttagatttaataagatttttatttatgttattcatcttaaaacacagaatatcagttttttggttgtgaccttgggctttgatacatattatcaattgttataatgtcgtgtgttataataatgaaaattcaaccatcgtctgatgattattgaaatgcacttggatttcatgctcagTGAATCAATCAGAGTTGGAGAGGTTAAAGAATGCTTTGAAGCTTCTCTCAGAGGCAGAGAAACAGTTAAGGACATCCAGTGAACGCTCTACATGGTTCAC
upper sequence: Vv12s0035g01960.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G02480.1 (Arabidopsis thaliana), 3'ss of exon 3
-atcttctgatgcta-atcct----aaatacatttacaaaatattgtcatttttctccttttaatttgtattaattattgctatgggtggtttgggttgttgacagTGACAGAGGCAGAAATGGATAGATTAAAGCATGCCTTGAAGCTTCTCTCAGAGGCTGAGAAACAACTAAGGGTTTCAAGTGAACGTTCAACATGGTTTAC
||| | | || ||||| | | ||||| || | | | | | | ||| || ||| | | | | | || | || | |||||| || ||||| ||||| ||||||||||||| ||||| ||||| || ||||||||||| || || || ||||| | ||| |||||||||||||| ||
acccttaagctaatatatcctgtaagagcaattttactccctacgatgagtcataaacc----acttggtttgattttcgaaaattcttgcttcgttttt--gtagTGACTGAAGCAGATATGGAGGGATTAAAGCATGCTTTGAAACTTCTTTCTGAGGCTGAGAAGCAGCTGAGAGTTTCTAATGACCGTTCAACATGGTTCAC
upper sequence: Vv12s0035g01960.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G14460.1 (Arabidopsis thaliana), 3'ss of exon 2
atcttctgatgctaatcctaaatacatttacaaaatattgtcatttttctccttttaatttgtat---taattattgctatgggtggtttgggttgttgacagTGACAGAGGCAGAAATGGATAGATTAAAGCATGCCTTGAAGCTTCTCTCAGAGGCTGAGAAACAACTAAGGGTTTCAAGTGAACGTTCAACATGGTTTAC
|| ||| ||| | |||| | | | || | | | || | | | ||| ||||| | || | ||| || || |||||| || || || |||| ||| |||||||||| ||||| ||||| || ||||||||||| || || || ||||| | ||| |||||||||||||| |
--------gtgagtatctgaaac-----ttcaaagttgtttagttctcattatcttgaatgaaacagctaagtattgttctgtttttgttgttttttttgtagTGACTGAAGCGGATTTGGAGAGACTAAAGCATGCTTTGAAACTTCTTTCTGAGGCTGAGAAGCAGCTTAGAGTTTCTACTGATCGTTCAACATGGTTCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctccttttaatttgtattaattattgctatgggtggtttgggttgttgacagTGACAGAGGCAGAAATGGATAGATTAAAGCATGCCTTGAAGCTTCTCTCAGAGGCTGAGAAACAACTAAGGGTTTCAAGTGAACGTTCAACATGGTTTAC
tattaat putative branch site (score: 2)
ttttaatttgtattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcttctgatgctaatcctaaatacatttacaaaatattgtcatttttctccttttaatttgtattaattattgctatgggtggtttgggttgttgacagTGACAGAGGCAGAAATGGATAGATTAAAGCATGCCTTGAAGCTTCTCTCAGAGGCTGAGAAACAACTAAGGGTTTCAAGTGAACGTTCAACATGGTTTAC
- - - tgatgct
- - - - - - - - - -aaataca
- - - - - - - - - - - - - - - caaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgggtgg