Sequence
atgc intronic sequence ATGC exonic sequencegtatggtctcaacagccagagatttctatcatatgcttgagctatggataagaatgaagcataaagtgtgttgactccataaaaatatatttttgcataagatagatgttttgatgggcctaaatatgactcaacaattaattcatgtgtattgtgtatagGTGATGGGAAGATCTTCTCCTAATGATAAACTTCTCCTTGTGCAAGCGCTACGCAAGGCTGGTGAGGTTGTTGCCGTAACAGGAGATGGCACTAATGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 25
lower sequence: LOC_Os02g08010.1 (Oryza sativa), 3'ss of exon 7
gtatggtctcaacagccagagatttctatcatatgcttgagctatggataagaatgaagcataaagtgtgttgactccataaaaatatatttttgcataagatagatgttttgatgggcctaaatatgactcaacaattaattcatgtgtattgtgtatagGTGATGGGAAGATCTTCTCCTAATGATAAACTTCTCCTTGTGCAAGCGCTACGCAAGGCTGGTGAGGTTGTTGCCGTAACAGGAGATGGCACTAATGATG
| | | ||| | || | | | | ||| | | | | | | ||| ||| | || || || ||||| |||| ||||||||||||||||| | ||| ||||||||||| || |||| || ||| || | |||||||| || || |||||||| || |||||||
-----------------------------------------------------acatactttcgagtttac--acattaccatgttcagtacttgtactggct-gttagctcgatcattctaggggaagcaacctgatgtcaaca-atgcattgt----agGTCATGGGAAGATCTTCTCCAAGTGACAAACTTCTCCTAGTAAAAGCACTGAAAAAGAAAGGCAATGTTGTTGCTGTTACTGGAGATGGAACGAATGATG
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 25
lower sequence: GLYMA08G23760.1 (Glycine max), 3'ss of exon 26
gtatggtctcaacagccagagatttctatcatatgcttgagctatggataagaatgaagcataaagtgtgttgactccataaaaatatatttttgcataagatagatgttttgatgggcctaaatatgactcaacaattaattcatgtgtattgtgtatagGTGATGGGAAGATCTTCTCCTAATGATAAACTTCTCCTTGTGCAAGCGCTACGCAAGGCTGGTGAGGTTGTTGCCGTAACAGGAGATGGCACTAATGATG
|| |||| || | | | ||| || | | |||| | | | || | | || | | | ||| | || || | | ||||||||||||| || |||||||||||||| || ||| | ||||||||||| ||||| || | || || |||||||| || |||||||||||||| |||||||
---------------------------------------------------caaggaagtgctgttcatgctaaattgctaataac---tctagccatatcacatgcgagttag-------atacataattttataatgacaatttgaataatatatatagGTGATGGGGAGGTCTTCTCCTAATGACAAGCTTTTGCTTGTGCAAGCTCTACGTAAAGGAGGGGAAGTTGTTGCGGTCACAGGAGATGGCACCAATGATG
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 25
lower sequence: GLYMA07G00630.2 (Glycine max), 3'ss of exon 23
gtatggtctcaacagccagagatttctatcatatgcttgagctatggataagaatgaagcataaagtgtgttgactccataaaaatatatttttgcataagatagatgttttgatgggcctaaatatgactcaacaattaattcatgtgtattgtgtatagGTGATGGGAAGATCTTCTCCTAATGATAAACTTCTCCTTGTGCAAGCGCTACGCAAGGCTGGTGAGGTTGTTGCCGTAACAGGAGATGGCACTAATGATG
|| | || || ||| | | | | || | || || | | | || | | | ||| | || || | | ||||||||||||| || |||||||||||||| || ||| | ||||||||||| ||||| || | || || |||||||| || |||||||| ||||| |||||||
-----------------------------------------------------------caaggaa-atgctgttcttgctaaattgc-taataactctagccatattacatgcgagttagatacataattttataatgacaatttgaataatatatatagGTGATGGGGAGGTCTTCTCCTAATGACAAGCTTTTGCTTGTGCAAGCTCTACGTAAAGGAGGGGAAGTTGTTGCGGTCACAGGAGACGGCACCAATGATG
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 25
lower sequence: GLYMA13G44990.1 (Glycine max), 3'ss of exon 25
gtatggtctcaacagccagagatttctatcatatgcttgagctatggataagaatgaagcataa-agtgtgttgactccataaaaatatatttttgcataagatagatgttttgatggg-cctaaatatgactca-----ac-----aattaattc----------atgtgtattgtgtatagGTGATGGGAAGATCTTCTCCTAATGATAAACTTCTCCTTGTGCAAGCGCTACGCAAGGCTGGTGAGGTTGTTGCCGTAACAGGAGATGGCACTAATGATG
||||||| || || ||| | | | || | | ||| ||| ||| || | | | | | | | | | || || | || | ||| || | ||| ||| || |||| ||| || | |||||| ||||||| ||||| || |||||||||| ||| || || | | |||||||| ||||| | | |||||| ||||||||||| |||||||||||||| |||||||
gtatggttctttcattgtgatttttttgtgacattcattccctaaaaatattcgagaatattattaatccactactattcttacatgctgtcctcgcttattacccatactacaatgaatcccccacatgtttcatatatacttttgaattgatttgcaaatatttatatatattgtatatagGTTATGGGGAGGTCTTCTCCTACTGACAAGCTGTTGATCGTGCAAGCACTACGTACAGGTGGTGAAGTTGTTGCCGTCACAGGAGATGGCACCAATGATG
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 25
lower sequence: GLYMA15G00340.1 (Glycine max), 3'ss of exon 25
------------------------gtatggtctcaacagccagagat-ttctatcatatgcttgagctatggataagaatgaagcata---aagtgtgttgactccataaaaatatatttttgcataagatagatgttttgatgggcctaaatatgactcaacaattaattcatgtgtat-tgtgtatagGTGATGGGAAGATCTTCTCCTAATGATAAACTTCTCCTTGTGCAAGCGCTACGCAAGGCTGGTGAGGTTGTTGCCGTAACAGGAGATGGCACTAATGATG
| |||| | | || | || ||| | |||| || | | | || | | | | | | || | | | |||| || || | | | || | ||| | ||| ||| | ||| | || | ||| | ||||||||| ||||| || |||||||||| ||| || || | || |||||||| ||||| | | |||||| |||||||| || |||||||||||||| |||||||
gtatggttctttcattgtgattttttgtggtattcattccctaaaatattcgagaatattattaatccactactatccttacatgctgtccacgcttattatccatactacaataaatcccc-cacatgtttaatat----atgcttttgaat-tgatttgcaaatatttatatatatatatatgtatagGTTATGGGGAGGTCTTCTCCTACTGACAAGCTGTTGCTCGTGCAAGCACTACGTACAGGTGGTGAAGTTGTTGCTGTCACAGGAGATGGCACCAATGATGMapped 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|71860621|gb|DT009676.1|DT009676EST: TCCGTGTATTATCTGAGAGAGAAAGAGAACAAGTTGCCAAGAAAATATTG GTGATGGGAAGATCTTCTCCTAATGATAAACTTCTCCTTGTGCAAGCGCTA
genomic: TCCGTGTATTATCTGAGAGAGAAAGAGAACAAGTTGCCAAGAAAATATTGgtatggtctc ... ttgtgtatagGTGATGGGAAGATCTTCTCCTAATGATAAACTTCTCCTTGTGCAAGCGCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttttgatgggcctaaatatgactcaacaattaattcatgtgtattgtgtatagGTGATGGGAAGATCTTCTCCTAATGATAAACTTCTCCTTGTGCAAGCGCTACGCAAGGCTGGTGAGGTTGTTGCCGTAACAGGAGATGGCACTAATGATG
aattaat putative branch site (score: 3)
aacaattaattcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggtctcaacagccagagatttctatcatatgcttgagctatggataagaatgaagcataaagtgtgttgactccataaaaatatatttttgcataagatagatgttttgatgggcctaaatatgactcaacaattaattcatgtgtattgtgtatagGTGATGGGAAGATCTTCTCCTAATGATAAACTTCTCCTTGTGCAAGCGCTACGCAAGGCTGGTGAGGTTGTTGCCGTAACAGGAGATGGCACTAATGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG