Sequence
atgc intronic sequence ATGC exonic sequence...atggagtgataaattgggggaaaaagaaaagaaggcttctctgtatatttttacatatggttattgatgctcattttttgggttaattttttttttccagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g16690.1 (Oryza sativa), 3'ss of exon 2
-----atggagtgataaattgggggaaaaagaaaagaaggcttctctgtatatttttacatatggttattgatgctcattttttgggttaattttttttttccagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATAC
| || | ||||| | | ||| | | || | | | |||| | |||||| ||| | || | | ||||| || || ||||| |||||||||||||||||||| ||||| | ||||| |||||| | ||||||||||| || || ||||||||||| |||| || |
gatctttctagaggatgattggaacacctttgtatttcagctgcacagtgttctcgtgtatatcccttcatatgctc-----ttgacattccaattaatctgcagGATCGTGATAGTTATTGGAAGATGATGCACAAGTACATAGGGGCAGATGTTACATCACTTGTGACACTTCCGGTCATCATTTTTGAGCCAATGACAATGC
upper sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G174644_T01 (Zea mays), 3'ss of exon 2
atggagtgataaattgggggaaaaagaaaagaaggcttctctgtatatttttacatatggttattgatgctcattttttgggttaattt----tttttttccagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATAC
|| || | | || | | || | || || | || | | || ||| || ||| | || | || ||| |||||||| || || |||||||||||||||||||| || ||||| || ||||| |||||| | ||||||||||| || || ||||||||||| |||| || |
--atcgtagtagttatgatccaactatttactatcctacacttggagttctgacct--gattcaggatcacgatctttaacaatcatgtgtggttaatttgcagGACCGTGATAGCTACTGGAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGC
upper sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G114126_T02 (Zea mays), 3'ss of exon 2
atggagtgataaattgggggaaaaagaaaagaaggcttctctgtatatttttacatatggtt--attgatgctcattttttgggttaattttttt------tttccagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATAC
|| || || | || | || ||||| || | | |||| ||| | | ||| | ||| | || | | ||| ||||| || || || || |||||||||||||||||||| ||||| || ||||| |||||| | ||||||||||| || || ||||||||||| |||| || |
-----tctatggttttaaggtcatagtagttttacgatc---gtatacttgaagttctggtctgattcaggatcactattttaacaaccttgtgtggttaatttgcagGATCGTGATAGCTATTGGAAGATGATGCACAAGTACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGC
upper sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G39880.1 (Glycine max), 3'ss of exon 2
-atggagtgataaattgggggaaaaagaaaagaaggcttctctgtatatttttacatatggttattgatgctcattttttgggttaattttttttttccagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATAC
| | || | || || |||| | | | || |||| | | | | ||| ||| || || | || || |||| || || |||||||||| |||||||| |||||| | ||||||||| |||||||||||||||||||||| ||||| ||||||||||| |||| |||
atttttattttatctcatggtgaactttggagaatttcttttcctccatatttataatgtatcaattctgcatgtttatttcctttacttacacttaataGGAGCGAGATGGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCGGTTATCATTTTTGAGCCAATGACAATA-
upper sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G15930.3 (Glycine max), 3'ss of exon 2
--atggagtgataaattgggggaaaaagaaaagaaggcttctctgtatatttttacatatggttattgatgctcattttttgggttaattttttttttccagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATAC
| || ||| ||| | ||| | || || ||||||| || || | | ||| ||| ||| || || | || ||| ||||| || || ||||||||||| |||||||| |||||| | ||||||||| |||||||||||||||||||||| ||||| |||||||| || |||| || |
tttctattttatctcatggtggactttggaaaaattattttcctctatatttata-atgta-tcatttctgcatgtttatttcctttacttacactttacagGAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCAGTTATCATTTTTGAACCAATGACAATGC
upper sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S148_87V6.1 (Physcomitrella patens), 3'ss of exon 2
---------------------------------------------------------------atgg----agtgataaattgggggaaaaagaaaagaa-------ggcttctctgtatatttttacatatggttattgatgc-tcattt---tttgggttaattttttttt----------tccagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATAC
||| |||| || || || ||| || ||| || |||| | ||||| | | || | | || | || ||| ||||| || | ||||| | || ||||| ||||| |||||||||||||| ||||| ||||| | || ||||||||||||||||| || || || |||||||| |||||| |
gtgaccttcatcttcatgccttaagcatcgagatcagtaatcatttttaatgtatgttgtggtgtggcattagtgccaatttcggcgaactggattggaattaatttaactcctct-tgaattttaatgtgaaagaatcagtacatcggctgccttaccgttgggtttttgttatgtggcaagtgcagGATAGAGAAAGTTATTGGAAAATGATGCACAAGTACATAGGTTCTGACATTACTTCAATGGTGACACTTCCAGTCATCATATTTGAGCCCATGACTACGC
upper sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ08612 (Selaginella moellendorffii), 3'ss of exon 2
atggagtgataaattgggggaaaaagaaaagaaggcttctctgtatatttttacatatggttattgatgctcattttttgggt---taattttttttttc--cagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATAC
|| | | | | | || || || || || || || | ||| | | | | ||| || |||| || || || |||||||| ||||||||||||||||| || || || ||||| || ||||||||||| || ||| ||||||||||||| |||| || |
--------------------gtaagtcttcccttgttctttttcttgttctttca-atacttgtttttgtttgtttcctcactctttggtctttacgatcgatagGATCGTGAGAGCTACTGGAAAATGATGCACAAGTATATTGGATCGGACGTCACTTCCATGGTGACACTGCCAGTTTTGATTTTTGAGCCCATGACGATGC
upper sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ19778 (Selaginella moellendorffii), 3'ss of exon 2
atggagtgataaattgggggaaaaagaaaagaaggcttctctgtatatttttacatatggttattgatgctcattttttgggttaattttttttttc--cagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATAC
| || ||| | | | ||||| | ||| ||| | | | || | ||| || |||| || || || |||||||| ||||||||||||||||| || || || ||||| || ||||||||||| || ||| ||||||||||||| |||| || |
------------------gtaagtcttcccttgttctttttcttgttcttttaatacttgtttttgtttgtttcctcactctttggtctttacgatcgatagGATCGTGAGAGCTACTGGAAAATGATGCACAAGTATATTGGATCGGACGTCACTTCCATGGTGACACTGCCAGTTTTGATTTTTGAGCCCATGACGATGCMapped 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|33404142|gb|CF209769.1|CF209769EST: AGGTGGAGAGAGGAG GACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTC
genomic: AGGTGGAGACAGGAGgtgcatttct ... ttttttccagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTC
EST:
gi|156735607|gb|EV239728.1|EV239728EST: GCACTGAAGATGCTGAAGCGGAAGCCCAGAGAGGAAGGTGGAGACAGGAG GACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTC
genomic: GCACTGAAGATGCTGAAGCGGAAGCCCAGAGAGGAAGGTGGAGACAGGAGgtgcatttct ... ttttttccagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttttacatatggttattgatgctcattttttgggttaattttttttttccagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATAC
ttaattttttttttcc CT-rich tract
attttttgggttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggagtgataaattgggggaaaaagaaaagaaggcttctctgtatatttttacatatggttattgatgctcattttttgggttaattttttttttccagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATAC
- - - - - - -ttggggg
- - - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - - ctctgta