Sequence
atgc intronic sequence ATGC exonic sequence...ttgaattgattctttagctttgcgatgatttttgcttacattatgttttgatttggattaaaaatgaacttgtttaatttctgttggatgtgattgacagGAATATTTGAAACAATGTCTCGTGTCTATGTGGGAAATTTGGATCCACGAGTTACTGAGCGAGAACTTGAAGATGAGTTTCGTGTTTTTGGAGTTATAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0069g00800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g54770.1 (Oryza sativa), 3'ss of exon 1
----ttgaattgattctttagc-tttgcgatgatttttgcttacatt-atgttttgatttggattaaaaatgaact-tgtttaatttctgttggatgtgattgacagGAATATTTGAAACAATGTCTCGTGTCTATGTGGGAAATTTGGATCCACGAGTTACTGAGCGAGAACTTGAAGATGAGTTTCGTGTTTTTGGAGTTATAAG-
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gtttatggtctgaaggtgtaacatttatcttttggtcctcttgcattcatgtagaaatatat-ttagggaagagctataattggttcctttcttactt------cagGGATTTGTTCA-CGATGGCCCGCTTGTATGTTGGCAACTTGGATCCCCGAGTGACTTCCGGGGAACTTGAAGATGAGTTTCGTGTGTTTGGAGTTCTGCGA
upper sequence: Vv04s0069g00800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G31580.2 (Arabidopsis thaliana), 3'ss of exon 1
-----------------------------------------------------------------------------------------ttgaattgattctttagctttg--cgatgatttttgcttacatt--atgttttgatt---tggattaaaaatgaacttgt-ttaatttctgttggatgtg--attgacagGAATATTTGAAACAATGTCTCGTGTCTATGTGGGAAATTTGGATCCACGAGTTACTGAGCGAGAACTTGAAGATGAGTTTCGTGTTTTTGGAGTTATAAG--
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gtcgcaaccaagtttctttatctccttctcactcttaattgtggtaacgttgatccgatctgttcaaatttgatcgggtcacttggtggatctagtgactctgtattttttctcgatgaattcaaatcctttcgaatgtcttactagaaaagatttagaattcctttatgttgaccttggtttattgtgccattgacagG--TTACAGAAGTAATGTCACGTGTGTACGTCGGAAATTTGGACCCGCGAGTTACTGAGCGTGAACTTGAGGATGAGTTCCGTGCCTTTGGAGTTGTCAGGA
upper sequence: Vv04s0069g00800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G31580.1 (Arabidopsis thaliana), 3'ss of exon 1
-ttgaattgattctttagctttgcgatgatttttgcttacattatgttttgatttggattaaaaatgaacttgt-ttaatttctgttggatgtg--attgacagGAATATTTGAAACAATGTCTCGTGTCTATGTGGGAAATTTGGATCCACGAGTTACTGAGCGAGAACTTGAAGATGAGTTTCGTGTTTTTGGAGTTATAAG--
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tctgtattttttctcgatgaattcaaatcctttcgaatgtcttac----tagaaaagatttagaattcctttatgttgaccttggtttattgtgccattgacagG--TTACAGAAGTAATGTCACGTGTGTACGTCGGAAATTTGGACCCGCGAGTTACTGAGCGTGAACTTGAGGATGAGTTCCGTGCCTTTGGAGTTGTCAGGA
upper sequence: Vv04s0069g00800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G24590.1 (Arabidopsis thaliana), 3'ss of exon 1
--------------ttgaattgattctttagctttgcgatgatttttgcttacattatgt---tttgatttggattaaaaatgaacttgtttaatttctg--ttgga---tgtgattgacagGAATATTTGAAACAATGTCTCGTGTCTATGTGGGAAATTTGGATCCACGAGTTACTGAGCGAGAACTTGAAGATGAGTTTCGTGTTTTTGGAGTTATAAG---
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gtaaatcccgatctccgttgtcacttctttactccagattcattcgtagtttcgatctatagatttcatctttttgaattcatcgctttcaaagtttttgaattgaagccttttgttgatagGTA-ACTTGAGG--ATGTCGCGTGTGTATGTTGGTAATTTGGATCCGCGAGTTACTGAACGTGAACTCGAGGATGAGTTTCGTTCCTTTGGTGTGATCAGGAGMapped 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|37190703|gb|CF610052.1|CF610052EST: AAGCGAGAGAACAGTGAGAAAGTTTTTAGGGTTTCAGCTAAACCCTTAAG GAATATTTGAAACAATGTCTCGTGTCTATGTGGGAAATTTGGATCCACGAG
genomic: AAGCGAGAGAACAGTGAGAAAGTTTTTAGGGTTTCAGCTAAACCCTTCAGgttcgtctcc ... tgattgacagGAATATTTGAAACAATGTCTCGTGTCTATGTGGGAAATTTGGATCCACGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgatttggattaaaaatgaacttgtttaatttctgttggatgtgattgacagGAATATTTGAAACAATGTCTCGTGTCTATGTGGGAAATTTGGATCCACGAGTTACTGAGCGAGAACTTGAAGATGAGTTTCGTGTTTTTGGAGTTATAAG
gtttaat putative branch site (score: 4)
attaaaaatgaacttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgaattgattctttagctttgcgatgatttttgcttacattatgttttgatttggattaaaaatgaacttgtttaatttctgttggatgtgattgacagGAATATTTGAAACAATGTCTCGTGTCTATGTGGGAAATTTGGATCCACGAGTTACTGAGCGAGAACTTGAAGATGAGTTTCGTGTTTTTGGAGTTATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - tgcttac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaaat