Sequence
atgc intronic sequence ATGC exonic sequence...tcttaagctactgatttgataaaaattggtaactttacttttttaattaataatgttcatcatactttttcttcggtaaatatgtatgtaaaaattgcagCTCATCAAGAGGCATTGAAGAAAGAGATAGAGAGACTGAGGCAAGTGTATCACCAACAAAGCCTAAAAAAGATGGGGAATTCAGCCACCGGAGCTCCACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g01780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g11350.1 (Oryza sativa), 3'ss of exon 3
--------------------------------------------tcttaa-gctactgatttgataaaaattggtaactttacttttttaattaataatgttcatcatactttttcttcggtaaatatgtatgtaaaaattgc--agCTCATCAAGAGGCATTGAAGAAAGAGATAGAGAGACTGAGGCAAGTGTATCACCAACAAAGCCTAAAAAAGATGGGGAATTCAGCCACCGGA-GCTCCACC--------
|| || | ||| || || | || || || || | | || | ||| | | | | ||| ||||||||| |||||| ||||||| ||||||||||| ||| ||||| | || ||||| |||||||| || || || | || || |||| || | ||
gtgaccgccatttgccacctcaattatgctactatatatcgttctcacaatgtcgctgtccgaattcaattcggcgacagcacgcaaccaaaattccacagctaaactaacactcgttctgaattctctcttctctgctctgctcagctcatcagGAGGCACTGAAGAAGGAGATAGAGAGGCTGCGGCAAATCTACCACCAGCAAAGCCTCAAGAACGCGGA-ATCCCAACCGGCGGACGCGGCCCCGGTCCGCG
upper sequence: Vv19s0014g01780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AC233853.1_FGT002 (Zea mays), 3'ss of exon 3
-------------------------------------------------------tcttaagctactgatttgataaaaattggtaactttacttttttaattaataatgttcatcatactttttcttcggtaaatatgtatgtaaaaattgcagCTCATCAAGAGGCATTGAAGAAAGAGATAGAGAGACTGAGGCAAGTGTATCACCAACAAAGCCTAAAAAA-GATGGGGAATTCAGCCACCGGAGCTCCACC---
|| | ||| | || || | | || | | | | || | | | | ||| ||| | ||||||||||| |||||| ||| ||| ||||| ||||| ||||||||| | || ||||| || ||||| || | | |||| | | | || || |
gtgaccgccattgccgccccctgctcctcccgactacgaccctcgccggtcgccgtcgtcgcaattcaattcgcgccgcatgcatatatgcaattatgcatgcagcgcaagacgccaccaccgccgctggctgacattgtgtgtgtgtgt-gcagCTCATCAGGAGGCACTGAGGAAGGAGATCGAGAGGCTGAGGCAAATCTACCACCAGCAGAGCCTGAAGAGCGGCAGGGAGCCCGAC----GCGGCCCCGTCGGT
upper sequence: Vv19s0014g01780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G027976_T01 (Zea mays), 3'ss of exon 3
tcttaagctactgatttgataaaaattggtaactttacttttttaattaataatgttcatca-tactttttcttcggtaaatatgtatgtaaaaattgcagCTCATCAAGAGGCATTGAAGAAAGAGATAGAGAGACTGAGGCAAGTGTATCACCAACAAAGCCTAAAAAAGATGGGGAATTCAGCCACCGGAGCTCCACC-
||| | || | ||| ||| |||| || | | ||| | | | | | |||| | | | || |||||||||||||||| |||||||| ||||| ||||| ||| | || || || | || || | ||| || | | | | || || | |||
------------------gtaagtgtgcgttaattt-cttgcttaaaccgta-cgaacgtcactgagtatatatacacacatatatctttcgttctt-cagCTCATCAAGAGGCGTTGAAGAAGGAGATCGAGAGGCTGCGCCAGGTCTACGAGCAGCAGAACCTCAAGATGTCAGCCGGCGCTGCTGCCTCTGA-CCATGG
upper sequence: Vv19s0014g01780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G34770.1 (Glycine max), 3'ss of exon 4
tcttaagctactgatttgataaaaattggtaactttacttttttaattaata--atgttcatcatactttttcttcggtaaatatgtatgtaaaaattgcagCTCATCAAGAGGCATTGAAGAAAGAGATAGAGAGACTGAGGCAAGTGTATCACCAACAAAGCCTAAAAAAGATGGGGAATTCAGCCACCGGAGCTCCACC
| | || || | || | | || | | || || | | ||| |||| || || | | |||| | | | | | ||||||| ||||| ||||| ||||| || ||||||||||| |||||| | ||||||||||| | |||| |||||||| | | | ||||
-ttccatcttttg-tggattatatactgacctttggaacttccaaaagcacaccatgatcatgattattgagatagtgggtatatattttttttactctcagCTCACCAAGAAGCATTAAAGAAGGAAATAGAGAGACTAAGGCAAATCTATCACCAACAGAACCTACAAAAGATGAACAGCAATCTTCAACAAACCACACC
upper sequence: Vv19s0014g01780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G35650.1 (Glycine max), 3'ss of exon 5
---------------------------------------------------------------------------------------tcttaagctactgatttgataaaaattggtaacttt---acttttttaatta-ataatgttcatcatacttt--ttcttcggtaaatatgtatgtaaaaattgcagCTCATCAAGAGGCATTGAAGAAAGAGATAGAGAGACTGAGGCAAGTGTATCACCAACAAAGCCTAAAAAAGATGGGGAATTCAGCCACCGGAGCTCCACC
| | || || ||||||| || | | |||| |||| || | | ||| |||| || || | | |||| |||| | | || | ||||||| ||||| ||||| ||||| || ||||||||||| |||||| | ||||| ||||| | |||| |||||||| || || | || ||
gtataatgctttgttctttttccttttccaaatattttcactccatcttttattttatgcaatccatatatacatattgagattttatttccttcttctcttttgatataatatatcacctttggaacttccaaaagcacaccatgatcatgattattgagatagtgggtatatatttttttactctct-cagCTCACCAAGAAGCATTAAAGAAGGAAATAGAGAGACTAAGGCAAATCTATCATCAACAGAACCTACAAAAGATGAACAACAACAACAACAATCTTCAACAMapped 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|30129365|gb|CB914704.1|CB914704EST: GCTTAAGCAAAGGATCGCGGCGTTAGCTCAAGATAAGATTTTCAAAGACG CTCATCAAGAGGCATT
genomic: GCTTAAGCAAAGGATCGCGGCGTTAGCTCAAGATAAGATTTTCAAAGACGgtgagagcgt ... aaaattgcagCTCATCAAGAGGCATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attaataatgttcatcatactttttcttcggtaaatatgtatgtaaaaattgcagCTCATCAAGAGGCATTGAAGAAAGAGATAGAGAGACTGAGGCAAGTGTATCACCAACAAAGCCTAAAAAAGATGGGGAATTCAGCCACCGGAGCTCCACC
aattaat putative branch site (score: 3)
taaatatgtatgtaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttaagctactgatttgataaaaattggtaactttacttttttaattaataatgttcatcatactttttcttcggtaaatatgtatgtaaaaattgcagCTCATCAAGAGGCATTGAAGAAAGAGATAGAGAGACTGAGGCAAGTGTATCACCAACAAAGCCTAAAAAAGATGGGGAATTCAGCCACCGGAGCTCCACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - -ctactga
- - - - - - - - - ataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtatgt