Sequence
atgc intronic sequence ATGC exonic sequence...ttctcaataacagcagaattgtcattctattatacagttatctttaggacattattatttaatacagtgttacttatctttgctttgtttctttgatcagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGATGCTCAAAGTTGCAGCTGAGTGTCATTTACATGGTCTGGTACACCGTGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g22710.3 (Oryza sativa), 3'ss of exon 2
ttctcaataacagcagaattgtcattctattatacagttatctttaggacattat---tatttaatacagtgttacttatctttgctttgtttctttgat-cagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGATGCTCAAAGTTGCAGCTGAGTGTCATTTACATGGTCTGGTACACCGTGAC
|| ||| ||| || | ||| |||||| |||| || | | | || | | || || | ||| || | |||||| | | |||||| |||||||||||||| ||||||||||| ||| |||||| |||| |||||||| ||||| |||||||| ||||| |||||| |||| || || |||
--ctgaatgttcaaagattt-ttatt-tattattaagttcgtttgaatatttgatgtatgtagaaagcaaattcactgatatcacatttgttctgctcttacagGAAAGATAGCCGTTATAGCGAGAAAGATGCTGCAGTAGTTGTGCGGCAAATGCTCAAGGTTGCTGCTGAGTGCCATTTGCATGGTTTGGTTCATCGGGAC
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g03410.2 (Oryza sativa), 3'ss of exon 3
-----------------------------------------------ttctcaataacagcagaattgtcattctattatacagttatctttaggacattattatttaatacagtgttacttatctttgctttgtttctttgatcagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGATGCTCAAAGTTGCAGCTGAGTGTCATTTACATGGTCTGGTACACCGTGAC
|||| | | ||||||| | | | | || | | | | ||||||| | || | || |||| ||| | ||||||||||||||||||||||| ||| || || |||||||||||||||| ||||||||||| ||| | ||||| || || ||||| ||
gtaagattagatatatcctccatttcttcttctgtagttgatacattttcttctatctttttgtgtcatcattctttagtttccattcccgtacagcttctagggccataaggccattacttactggcaccttccatttt--gtcagAAAGAACAGCCGTTATAGTGAGAAAGATGCTGCAGTGGTGGTGCGGCAGATGCTCAAAGTGGCAGCTGAGTGCCATCTGCATGGGCTAGTTCACCGAGAT
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G365035_T01 (Zea mays), 3'ss of exon 3
--ttctcaataacagcagaattgtcattctattatacagttatctttaggacattattatttaatacagtgttacttatctttgctttgtttctttgatcagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGATGCTCAAAGTTGCAGCTGAGTGTCATTTACATGGTCTGGTACACCGTGAC
| || | | | || |||||| ||| | | || || | || | | | || || || | | ||| |||||| ||||| ||||| || ||||||||||| ||| |||||| | ||||||||||| |||||||||||||| || | |||||| |||| || || |||
tatgctgtgtttacactttacactctttctat-atagtgctgctgttctgatgtatctagaaggcatcttat-gctggaattcatattttgtgcctgaacagGAAAGATAGTCGTTACAGCGAGAAAGATGCTGCAGTAGTTGTCCGACAGATGCTCAAGGTTGCAGCTGAGTGCCACCTGCATGGTTTGGTTCATCGGGAC
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G23870.1 (Glycine max), 3'ss of exon 5
ttctcaataacagcagaattgtcattctattatacagttatctttaggacatta---ttatttaatacagtgttacttatctttgctttgttt-ctttgatcagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGATGCTCAAAGTTGCAGCTGAGTGTCATTTACATGGTCTGGTACACCGTGAC
|| | ||| | || || ||||| |||| | | | || | | ||| | | ||| || | ||| ||| |||| ||||||||||| || ||||||| ||| | ||| ||||| |||||||||||||||||||| ||||||||||||||||||||||||||| |||||||||| |||
----cagaaccagggtcaatgatttttggttatatgtttatgtgtttggcagaaagctgtttttgtgtaccagaactaatttcctcttcatttgctttaatcagGAAGGACAGTCGTTATACTGAAAGAGACGCAGCGGTGGTTGTAAGGCAGATGCTCAAGGTTGCAGCTGAGTGTCATTTACATGGTTTGGTACACCGGGAC
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 3
ttctcaataacagcagaattgtcattc-tattatacagttatc--tttaggacattattatttaatacagtgtta-cttatctttgctttgtttctttgatcagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGATGCTCAAAGTTGCAGCTGAGTGTCATTTACATGGTCTGGTACACCGTGAC
| | || || | || || | | || | ||||| || | | || | | ||||| | ||||| |||| ||||||||||| | ||||||| ||| ||||| |||| |||||||||||||||||||| ||||||||||||||||||||||||||| |||||||||| ||
taagtgaacccactgattttattttttataatttgcacccactgacttagggtcttggt-tccgccactgcccgaacttatttcctctttg---ctttaatcagGAAGGACGGTCGTTATACTGAAAAAGACTCAGCGGTGGTTGTAAGGCAGATGCTCAAGGTTGCAGCTGAGTGTCATTTACATGGTTTGGTACACCGGGAT
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G37100.1 (Glycine max), 3'ss of exon 4
------------------------------------------------------------------ttctcaataaca--gcagaattgtcattct--atta-tacagttatctttaggacattattatttaatacagtgttacttatctttgctttgtttct---ttgatcagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGATGCTCAAAGTTGCAGCTGAGTGTCATTTACATGGTCTGGTACACCGTGAC
| | ||| | | ||||| | || | || | | || ||| ||| | | ||| | | | ||| ||| || || || | || ||||||||||| || ||||||| ||| ||||||||||| ||||||||||||||||| || ||||| |||||||||||||||||||| |||||||||| |||
gtaagttctaatttatcttgaatgtgatttttttttccttgtctaagtggctcttcagtgtgtcaatggtgaatcatatttcagaaccatgatccctaatgactccaaatatttttgtcttagcaatatatttttccttgt-actagaacttactctgccttcacatttatcagGAAGGACAGTCGTTATACTGAAAAAGATGCAGCTGTGGTTGTAAGGCAGATGCTAAAGGTTGCGGCTGAGTGTCATTTACATGGGTTGGTACACCGGGAC
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G08180.1 (Glycine max), 3'ss of exon 4
---------------------------------------------------------------------ttctcaataacagcagaattgtcattctattatacagttatctttaggacattattatttaatacagtgttacttatctttgctttgtttctttgatcagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGATGCTCAAAGTTGCAGCTGAGTGTCATTTACATGGTCTGGTACACCGTGAC
| || || |||| || | | | || || | || || ||| | | || ||||| || ||| || | || ||||||||||| || ||||||| ||| ||||||||||| ||||||||||| ||||| || ||||| |||||||||||||||||||| |||||||||| |||
gtaagttccaatttatcttttatcttgaatgtgattatttttatttccttgtttaagtggctcttcagtgtgtctatggtgatcaaatttcagaatcatgacccc-tgatgactaaaaattttttttttcttgtactggaactta-ctctgcctt--cacatttatcagGAAGGACAGTCGTTATACTGAAAAAGATGCAGCTGTGGTTGTAAGGCAAATGCTTAAGGTTGCGGCTGAGTGTCATTTACATGGGTTGGTACACCGGGAC
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G66210.4 (Arabidopsis thaliana), 3'ss of exon 3
--ttctcaataacagcag--aattgtcattctattatacagttatctttaggacattattatttaatacagtgttacttatctttgctttgtttctttgatcagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGATGCTCAAAGTTGCAGCTGAGTGTCATTTACATGGTCTGGTACACCGTGAC
| ||| | | | | | | ||||||| | || || | | || ||| | || || | || ||| || ||||||| | || || || |||||||||||||| || || |||||||||||||||||||||| || |||||| |||| ||||| ||||| | ||
gttagtcagcatctctcactactctttaatctattaccggtggaatcgtaagaaagaacc---taccttctcattattgatgctttcctttttttatttttcagGAAAGGTAATCGGTACTCCGAGAAAGATGCAGCCGTTGTCGTTAGGCAGATGCTCAAAGTTGCAGGAGAATGTCATCTACACGGTCTTGTACATAGAGAT
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S83_8V6.1 (Physcomitrella patens), 3'ss of exon 3
ttctcaataacagcagaattgtcattctattatacagttatctttaggacattattatttaatacagtgttacttatctttgctttgtttctttgat-cagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGATGCTCAAAGTTGCAGCTGAGTGTCATTTACATGGTCTGGTACACCGTGAC
| | | || ||| ||| | ||||| || | || | ||| | || | | ||| | || ||| || | |||||||||||| || || ||||||||||| || ||||| |||| ||||||||||| || || |||||| ||||||| || | || |||| || |||||
cttcttacagcattagatttggtactctatcatcgtacactacttcaatattcattgaacagtatacagaaggttaaaaatactg-gttcctatatcacagGAAGGATAGTCGATACAGTGAGAAAGACGCCGCAAAGATTGTTAGGCAGATGCTGAATGTCGCAGCTCGGTGTCATCTAAACGGGGTGGTTCATCGTGATMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|71864824|gb|DT013879.1|DT013879EST: GTTATGTGAGGGTGGTGAATTGTTGGATCGGATATTGGCCAA GAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGAT
genomic: GTTATGTGAGGGTGGTGAATTGTTGGATCGGATATTGGCCAAgtaagaatct ... ctttgatcagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGAT
EST:
gi|161721254|gb|FC069680.1|FC069680EST: GTTATGTGAGGGTGGTGAATTGTTGGATCGGATATTGGCCAA GAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGAT
genomic: GTTATGTGAGGGTGGTGAATTGTTGGATCGGATATTGGCCAAgtaagaatct ... ctttgatcagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggacattattatttaatacagtgttacttatctttgctttgtttctttgatcagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGATGCTCAAAGTTGCAGCTGAGTGTCATTTACATGGTCTGGTACACCGTGAC
atttaat putative branch site (score: 4)
cttatctttgctttgt putative PPT
attattatttaataca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctcaataacagcagaattgtcattctattatacagttatctttaggacattattatttaatacagtgttacttatctttgctttgtttctttgatcagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGATGCTCAAAGTTGCAGCTGAGTGTCATTTACATGGTCTGGTACACCGTGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - caataac
- - - - - - - - - - gtcattc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatacag