Sequence
atgc intronic sequence ATGC exonic sequencegtcatggggtcacatttctcctttttctcttttagttattgttggcttgttgatccatttttctgatgtctcctattcttgatggttttacagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAGAAGGGCAATTGTGTGGGCATTGCATTTCAGTCTCTTAAACATGAAGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os06g12780.1 (Oryza sativa), 3'ss of exon 2
-----------------------------------------------gtcatggggtcacatttctcctttttctctt--ttagttattgttggcttgttgatcc---atttttctgatgtctcctattcttgatggttttacagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAGAAGGGCAATTGTGTGGGCATTGCATTTCAGTCTCTTAAACATGAAGATG
| || | || | || | || ||| | | || | | | || | | | | || | || | | | || |||| |||||||||||| |||||||| || ||||| ||||| || ||||| || ||||| |||||||| ||||||||||| || ||||| ||||||||||| |||||||
gtttttctcttaagatctttgcatgcttttgattgtctatattttgcatattgtagacatagtttttacttctctttggaattatttctaataatctcttaacctgggagcatacttaagttttcactgtttcatgga---acagATAGATGCAGCTATAAATTCAGGAAACTCTGGGGGCCCTGCTTTTAATGATAAGGGCAAGTGTGTGGGCATAGCTTTTCAATCTCTTAAACACGAAGATG
upper sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g50880.1 (Oryza sativa), 3'ss of exon 2
----gtcatggggtcacatttctccttt----ttctcttttagttattgttggcttgttgatccatttttctgatgtctcctattcttgatggtttta----cagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAGAAGGGCAATTGTGTGGGCATTGCATTTCAGTCTCTTAAACATGAAGATG
| | |||| ||||| ||| | | || | | | | | |||||| || | | |||| || || ||||||| ||||||||||| ||||| ||||| |||||||| ||||| || || || ||||| | |||||| ||||| || || || ||||| ||||| |||||||||||||
gttcattttctccccacaattctcatttagaatagtattatctgtgaggataacatgttgagaaatcat----aagtcttttaacttttggggttttatggacagATAGATGCAGCTATTAACTCAGGAAATTCAGGTGGCCCAGCTTTTAATGACAGGGGCAAATGTGTTGGTATAGCTTTTCAATCTCTCAAACATGAAGATG
upper sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G165969_T01 (Zea mays), 3'ss of exon 3
---------------gtcatggggt-cacatttctcctt-----tttctcttttagttattg----ttggcttgttgatccatttttctgatgtct-cctattcttgatggttttacagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAGAAGGGCAATTGTGTGGGCATTGCATTTCAGTCTCTTAAACATGAAGATG
| || | || | || | ||| ||| |||||| ||| || | | || | ||||| ||||| |||| | || |||||||||||| |||||||| || |||||||| || |||||||| |||||||| ||||| || ||||| || || || || || |||||||||||||||||||
gtattaacgtattgtattatattctgcatacttttacttatagatttgccttttatacgttgaactatgccacacttatgtaaacttctgttgtctgtttattactcataa----acagATAGATGCAGCTATAAATTCAGGAAATTCAGGGGGGCCTGCTTTCAATGATAAGGGAAAATGTGTTGGTATAGCTTTCCAATCTCTTAAACATGAAGATG
upper sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM5G877597_T02 (Zea mays), 3'ss of exon 2
------------------------------------------gtcatggggtcacatttctcctttttctcttttagttattgttggcttgttgatccatttttctgatgtctcctattcttgatggtttta-cagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAGAAGGGCAATTGTGTGGGCATTGCATTTCAGTCTCTTAAACATGAAGATG
| || | | || | | | || || | | || | | | || || || || | | | | ||| |||||||||| ||||| || || |||||||| ||||| || || || ||||| | ||| || ||||| || || || |||||||||||||||||||||||||
gtacatttttttctgaaattatgataacttcaaataaatctttttataaagatagatgttgcaagtgaagtaaatattttgagaaatcatgacttatcggctcaccgacgtgtctaataccttgtcttgttaatagATAGATGCAGCTATTAATTCAGGAAATTCAGGTGGCCCAGCTTTTAATGATAGGGGAAAATGTGTCGGTATAGCTTTTCAGTCTCTTAAACATGAAGATG
upper sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G144501_T02 (Zea mays), 3'ss of exon 2
-------------------------------------------------gtcatggg-gtcacatttctcctttttctcttt--tagttattgttggcttgttgatccatttttctgatgtctcctattcttgatggttttacagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAGAAGGGCAATTGTGTGGGCATTGCATTTCAGTCTCTTAAACATGAAGATG
|||| || || | | ||| || | | || | || | | | | ||| || | |||| || | |||||||||| ||||| || || |||||||| ||||| || || || ||||| | ||||| ||||| || || |||||||| |||||||||||||||||||
gtacctttcccccctgaaattataataacttcaaataaacctttatataaagatggatgttgcaagtgaagtaaatctattgagaaataataacttatctgcttaccggcatgtctaata----cgggccttgtcttgttgatagATAGATGCAGCTATTAATTCAGGAAATTCAGGTGGTCCAGCTTTTAATGATAGAGGCAAATGTGTCGGTATAGCATTTCAATCTCTTAAACATGAAGATG
upper sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AC212112.4_FGT002 (Zea mays), 3'ss of exon 2
--------------------------------------------gtcatggggtcacatttctccttttt-----ctcttttagttattgttggcttgttgatccatttttctgatgtctcctattcttgatggttttacagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAGAAGGGCAATTGTGTGGGCATTGCATTTCAGTCTCTTAAACATGAAGATG
| || | | || | | | || |||| | || ||| | | || || | | |||| || | |||||||||| ||||| || || |||||||| ||||| || || || ||||| | ||| || ||||| || || || |||||||||||||||||||||||||
gtacattttttttcctgaaattatgataacttcaaataaatctttttataaagatagatgttgcaagtgaagtaactattttgagaaaccatgacttatcggctcaccgacgtgtctaatacgggccttgtcttgttgatagATAGATGCAGCTATTAATTCAGGAAATTCAGGTGGCCCAGCTTTTAATGATAGGGGAAAATGTGTCGGTATAGCTTTTCAGTCTCTTAAACATGAAGATG
upper sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G015959_T01 (Zea mays), 3'ss of exon 2
-------------------------------------------gtcatggggtcacatttctcctttttc-----tcttttagttattgttggcttgttgatccatttttctgatgtctcctattcttgatggttttacagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAGAAGGGCAATTGTGTGGGCATTGCATTTCAGTCTCTTAAACATGAAGATG
| || | | || | | | | |||| | | || ||| | | || || | | |||| || | |||||||||| ||||| || || |||||||| ||||| || | || ||||| | ||| || ||||| || || || |||||||||||||||||||||||||
gtacattttttctctaaaattatgataacttcaaataaatctttttataaagatagatgttgcaagtgaagtaaatattttgagaaatcatgacttatcggctcaccgacgtgtctaatacgggccttgtcttgttaatagATAGATGCAGCTATTAATTCAGGAAATTCAGGTGGCCCAACTTTTAATGATAGGGGAAAATGTGTCGGTATAGCTTTTCAGTCTCTTAAACATGAAGATG
upper sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G09970.1 (Glycine max), 3'ss of exon 2
gtcatggggtcacatttc-----tcctttttctcttttagttattgttggcttgttgatccattt--ttctgatgtctcctattcttgatggt--tttacagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAGAAGGGCAATTGTGTGGGCATTGCATTTCAGTCTCTTAAACATGAAGATG
|| | || | ||| || | |||||||| || | || | | | | || || | | | | | | || ||| ||||| |||||||||||||||||||| ||||||||||| ||||| || ||||| || || || |||||||| |||||||||||||| || || ||||||||||
--aattaagctgtatacccaaaatccaattgtacccttagttatgaatgcatgatttgtttaatgtatcctaattttccttcattaaggttgtcttttgcagATTGATGCTGCTATAAACTCTGGCAATTCTGGTGGACCTGCATTTAATGACAAAGGAAACTGTGTGGGGATTGCATTTCAGTCCCTCAAGCATGAAGATG
upper sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G01930.1 (Glycine max), 3'ss of exon 2
---gtcatggggtcacatttctcctttttctcttttagttattgttggcttgttgatccattt--ttctgatgtctcctattcttgatggt--tttacagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAGAAGGGCAATTGTGTGGGCATTGCATTTCAGTCTCTTAAACATGAAGATG
| | || | | ||| | || |||||||| | || | | | | ||||| | | | | | | || ||| |||||||||||||||||||| ||||| ||||||||||| ||||| || ||||| || || || |||||||| |||||||||||||| || || ||||||||||
ttaattaaggtatagccaaaatccaaatgttcccttagttatgaacttatgatttgtttaatgtatcctgattttccttcattaaggttgtcttttgcagATAGATGCTGCTATAAATTCTGGCAATTCTGGTGGACCTGCATTTAATGACAAAGGAAACTGTGTGGGGATTGCATTTCAGTCCCTCAAGCATGAAGATG
upper sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G40200.1 (Arabidopsis thaliana), 3'ss of exon 2
gtcatggggtcacatttctcct--ttttctcttttagttattgttggcttgttgatccatttttctgatgtctcctattcttgatggttttacagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAGAAGGGCAATTGTGTGGGCATTGCATTTCAGTCTCTTAAACATGAAGATG
|| | ||||||| | | | || | ||| | || | | | || | |||| | || || ||| ||| ||||| ||||| ||||| || ||||| ||||||||||| ||||| || ||||| || || || ||||| || ||||||||||||||| | ||||| |||||||
gttg-gacaacacatttgacatgatatttttccttatctgactagggagttaagggcacttataaaaatgttttctgtttttgtc---ttttcagATTGATGCAGCTATTAATTCTGGGAATTCTGGTGGTCCTGCATTTAATGATAAAGGAAAATGTGTTGGTATTGCATTTCAGTCTTTGAAACACGAAGATGMapped 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|71854817|gb|DT003872.1|DT003872EST: TAGAGATCCTATCTTATGTTCATGGGTCCACTGAGCTTCTGGGTTTACAG ATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAG
genomic: TAGAGATCCTATCTTATGTTCATGGGTCCACTGAGCTTCTGGGTTTACAGgtcatggggt ... ggttttacagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttggcttgttgatccatttttctgatgtctcctattcttgatggttttacagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAGAAGGGCAATTGTGTGGGCATTGCATTTCAGTCTCTTAAACATGAAGATG
atttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcatggggtcacatttctcctttttctcttttagttattgttggcttgttgatccatttttctgatgtctcctattcttgatggttttacagATAGATGCTGCTATAAACTCTGGAAATTCTGGTGGGCCTGCCTTCAATGAGAAGGGCAATTGTGTGGGCATTGCATTTCAGTCTCTTAAACATGAAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG