Sequence
atgc intronic sequence ATGC exonic sequence...tctatgattattctatgatgtttcttttggcttttgatcactttgttaggatgagaatgtgctactttttctacttgcatggattgatccttcctttcagGTGGCACAATCATCTAAATCCTGCCATAAACAAGGAAGCATGGACTCAAGAAGAGGAACTGGCTTTAATTCATGCTCATCAAATTTATGGGAACAAGTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g13570.1 (Oryza sativa), 3'ss of exon 5
--tctatgattattctatgatgt--ttcttttggcttttgatcactttgttaggatgagaatgtgctactttttctacttgcatggattgatccttcctttcagGTGGCACAATCATCTAAATCCTGCCATAAACAAGGAAGCATGGACTCAAGAAGAGGAACTGGCTTTAATTCATGCTCATCAAATTTATGGGAACAAGTGG
| ||||| | |||| | | |||| ||| | || | || |||| | || | || | | ||| | | || ||||||||||| ||||| || |||| |||||||||||| |||||||| |||||||||||| | | | || |||||||||| ||| ||||| || || |||
tatgctaatttatttcttaatgtgcatgccattatttttaatcgagtatcattactgtggatt--ctacgtcttaaagatggactatctaatc--tgcatttagGTGGCACAACCATCTTAACCCTGGCATAAACAAGGAGGCATGGACACAAGAAGAGGAAATTACCCTCATACATGCTCATCGAATGTATGGAAATAAATGG
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g12860.1 (Oryza sativa), 3'ss of exon 5
tctatgattattctatgatgtttcttttggcttt--tgatcactttgttaggatgagaatgtgctactttttctact--tgcatggattgatccttcctttcagGTGGCACAATCATCTAAATCCTGCCATAAACAAGGAAGCATGGACTCAAGAAGAGGAACTGGCTTTAATTCATGCTCATCAAATTTATGGGAACAAGTGG
|| || || | || | | | || || | | | || || || | ||||| | | ||| || || | ||| | | || |||||| |||| ||||| || |||| |||||||||||| |||||||| |||||||||||| | | | || |||||||||| ||| ||||| || || |||
--taactttgtttcttaatatgcatggtagcattatttttaatttgagtatcattacaatgtattggatgccttacagatgtatcatctaatc--tgcatttagGTGGTACAACCATCTTAACCCTGGCATAAACAAGGAGGCATGGACACAAGAAGAGGAAATTACCCTCATACATGCTCATCGAATGTATGGAAATAAATGG
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G470307_T01 (Zea mays), 3'ss of exon 3
tctatgattattctatgatgtttcttttggcttttgatcactttgttaggatgagaatgtgctactt----tttctacttgcatggattgatccttcct-ttcagGTGGCACAATCATCTAAATCCTGCCATAAACAAGGAAGCATGGACTCAAGAAGAGGAACTGGCTTTAATTCATGCTCATCAAATTTATGGGAACAAGTGG
|| |||| | | ||||| || ||| || | |||||| || | ||||| |||||||| || |||||||||||||||||||| || || |||||||||||||| |||||||| ||||||||||| | || | |||||||||||| || ||||| || || |||
-----aggcatcatatggtatgtctttgcaaattcattcaattatgggtactataaatgtgttaactgtagtttctctaaccatggattagcttatctgattcagGTGGCACAATCATCTTAACCCAGCCATAAACAAGGAGGCATGGACGCAAGAAGAGGAGATTACTCTTATTCATGCTCATAGGATGTATGGAAATAAATGG
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G08550.1 (Glycine max), 3'ss of exon 6
tctatgattattctatgatgtttcttttggcttttg--atcactttgttaggatgagaatgtgctactt--tttctacttgcatggattgatccttcctttcagGTGGCACAATCATCTAAATCCTGCCATAAACAAGGAAGCATGGACTCAAGAAGAGGAACTGGCTTTAATTCATGCTCATCAAATTTATGGGAACAAGTGG
| |||||| | | | || ||| || | |||| ||| | || | || || || || || || | | |||||||| |||||||| |||||| | ||||| |||||||||||||| ||||||||||| ||||| | || | || ||||| ||||||||||||| |||
attcagattatctt----tatccctgttgcctcataccatcatattggagaatttcgatggatgtagttaattctcgtttatataattttgtaaaaatgtatagGTGGCATAATCATCTTAATCCTACTATAAATAAGGAAGCATGGACGCAAGAAGAGGAGTTGGCTCTTATACGCGCACATCAGATTTATGGGAACAGATGG
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G08660.1 (Glycine max), 3'ss of exon 6
-------------------------------------------------------------------------------------------tctatgattattctatgatgtttcttttggcttttgatcactttgttaggatgagaatgtgctactt--tttctacttgcatggattgatccttcctttcagGTGGCACAATCATCTAAATCCTGCCATAAACAAGGAAGCATGGACTCAAGAAGAGGAACTGGCTTTAATTCATGCTCATCAAATTTATGGGAACAAGTGG
| | | | || | ||||| | || | |||| ||| | || | || || || |||| || ||| | | |||||||| |||||||| |||||| | ||||| |||||||||||||| || |||||||| ||||| | || | || ||||| ||||||||||||| |||
gtatggaggctattggatttctattgctttgcgtaagccactagcatcattaatgcatcttttgtgataaattagagtataataataaaatattttattcagattacctttattcttattgcctcatatcatattggagaatttcgatagatgtagttaattctcacttatataatttgtaaaatgtat--agGTGGCATAATCATCTTAATCCTACTATAAATAAGGAAGCATGGACGCAGGAAGAGGAGTTGGCTCTCATACGCGCACATCAGATTTATGGGAACAGATGG
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G21490.1 (Glycine max), 3'ss of exon 2
tctatgattattctatgatgtttcttttggcttttgat-cactttgttaggatgagaatgtgctactttttctacttgcatggattgatccttcctttcagGTGGCACAATCATCTAAATCCTGCCATAAACAAGGAAGCATGGACTCAAGAAGAGGAACTGGCTTTAATTCATGCTCATCAAATTTATGGGAACAAGTGG
||| |||||| | || || ||| || ||| || | | | | ||| ||| || ||| || | | |||||| |||||||| ||||| | || || |||||||||||||||| |||||||| |||||||||| ||| |||||| |||| ||||||||| |||
-acatgtcggatctatgtagccgaccttatctattgggacattttatttttgttattgttgatgtttattttgactaatatcatttgtaaaatcttgttagGTGGGTTAATCATCTTGATCCTACTATTAAAAAGGAAGCATGGACTCGGGAAGAGGAGTTGGCTTTAATACATTATCATCAGATTTTTGGGAACAAATGG
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G11510.1 (Arabidopsis thaliana), 3'ss of exon 6
tctatgattattctatgatgtttcttttggcttttgatcactttgttaggatgagaatgt----gctactttttcta---cttgcatggattgatccttcct--ttcagGTGGCACAATCATCTAAATCCTGCCATAAACAAGGAAGCATGGACTCAAGAAGAGGAACTGGCTTTAATTCATGCTCATCAAATTTATGGGAACAAGTGG
|||| |||| | | | | | | ||| ||| | | | || | ||||| | || || | || || | ||||||||||||||||| ||||||||||||||||| ||||| |||||||||||||| || ||| | | |||| |||||||||||| ||||| || | |||
-gtatgcttatagagacagctatttctctaacaacagt-gttttactagcactatatagtttttgtcctcttttcaagattttaactgtgaaggctgttactgatatagGTGGCACAATCATCTCAATCCTGCCATAAACAAAGAAGCTTGGACTCAAGAAGAAGAGCTGCTTCTGATTCGTGCTCATCAAATATATGGTAATAGATGG
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G32730.1 (Arabidopsis thaliana), 3'ss of exon 6
tctatgattattctatgatgtttcttttggcttttgatcactttgttaggatgagaatgtgctactttttctacttgcatggattg-atccttcct--ttcagGTGGCACAATCATCTAAATCCTGCCATAAACAAGGAAGCATGGACTCAAGAAGAGGAACTGGCTTTAATTCATGCTCATCAAATTTATGGGAACAAGTGG
| || | | | | || | || ||| | | | | || | | | ||| || ||| | || | | | |||||||| || ||||| || |||| || || || | ||||||||||| |||||||||||| || | |||| ||| ||||||||||||||||| || |||
------gtaatgcaaaggc-tctcaacttctttccgataaaatgatatttacatacattgggtggtacttcaacgcacataaacaatattgtgggtgatgtagGTGGCATAACCATCTTAACCCTGGGATTAATAAAAATGCATGGACTCAGGAAGAGGAACTGACTCTTATTCGTGCGCATCAAATTTATGGGAATAAATGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaggatgagaatgtgctactttttctacttgcatggattgatccttcctttcagGTGGCACAATCATCTAAATCCTGCCATAAACAAGGAAGCATGGACTCAAGAAGAGGAACTGGCTTTAATTCATGCTCATCAAATTTATGGGAACAAGTGG
gattgat putative branch site (score: 4)
ttgatccttcctttc CT-rich tract
tacttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctatgattattctatgatgtttcttttggcttttgatcactttgttaggatgagaatgtgctactttttctacttgcatggattgatccttcctttcagGTGGCACAATCATCTAAATCCTGCCATAAACAAGGAAGCATGGACTCAAGAAGAGGAACTGGCTTTAATTCATGCTCATCAAATTTATGGGAACAAGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - -cttttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - gaatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgga