Sequence
atgc intronic sequence ATGC exonic sequence...attctcttgcccattcttgatttgccttagtgcaatttaccatttactgagagcttaactggattacttttccattaatggctattgtgttgaatttcagGTATGTTTTTGGACTTGTACATGTGCCTCGCTTGGAAGACTGGCCTGTTATGCCAGTGGAACGCATCGGTTTTATGCTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 11
attctcttgcccattcttgatttgccttagtgcaatttaccatttactgagagcttaactggattacttttccattaatggctattgtgttgaattt-cagGTATGTTTTTGGACTTGTACATGTGCCTCGCTTGGAAGACTGGCCTGTTATGCCAGTGGAACGCATCGGTTTTATGCTTCAG
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----gtatacttgctactacgatgcatctgtgtaactttct-tcggttcacgactg----ggaatatt-----gttgttaactat-acactgcatctgcagGTATGTGTTTGGGCTCACCCATATCCCAAGGCTGGAGGACTGGCCTGTCATGCCAGTGGAACGCATCGGCTTCATGCTCATG
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os04g04950.1 (Oryza sativa), 3'ss of exon 10
attctcttgcccattcttgatttgccttagtgcaatttaccatttactgagagcttaactg-gattacttttccattaatggctattgtgttgaatttcagGTATGTTTTTGGACTTGTACATGTGCCTCGCTTGGAAGACTGGCCTGTTATGCCAGTGGAACGCATCGGTTTTATGCTTCAG
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-ttatggtgatgtgaataaatgtccatttgtgtatcctaagtatacatatttttccatctataatggcatgactaataaaacacatgttttgcaactgcagGTACGTTTTCGGGGTTACCCATGTCCCAAGGCTCGAAGACTGGCCTGTAATGCCAGTGGAACACATCGGCTTCATGCTGAAG
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G09290.1 (Glycine max), 3'ss of exon 10
attctcttgcccattcttgat---ttgccttagtgcaatttaccatttactgagagcttaactggattac-ttttccattaatggctattgtgttgaatttcagGTATGTTTTTGGACTTGTACATGTGCCTCGCTTGGAAGACTGGCCTGTTATGCCAGTGGAACGCATCGGTTTTATGCTTCAG
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--tctattataaaaatcgcatctattgttccaatttactttactgataa-tgctaatgaaaatgatgcatattttctatcgagactaactttgtt-aatttcagGTATGTATTTGGAATCACACAGGTTCCTCGTTTGGAAGACTGGCCAGTTATGCCAGTAGAACGCATCGGTTTTATGCTCATG
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA06G18810.1 (Glycine max), 3'ss of exon 10
attctcttgcccattcttgatttgc--cttagtgcaatttaccatttactgagagcttaactggattacttttccattaatggctattgtgttgaatttcagGTATGTTTTTGGACTTGTACATGTGCCTCGCTTGGAAGACTGGCCTGTTATGCCAGTGGAACGCATCGGTTTTATGCTTCAG
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tcttcaatgttcattttctttttccaattaactataatttttaccatggtcatgcattcacattttttcctctccag-actaactgttgtgtt-atcttcagGTATATATTTGGAATCACACACGTTCCTCGTTTGGAAGACTGGCCTGTTATGCCAGTAGAGCGCATTGGTTTTATGCTCACGMapped 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|110384772|gb|EC949232.1|EC949232EST: ACATGGGTTAAGCAGAATCGTCCTCTGGAGGAAACTGATATAGTTCTGTG GTATGTTTTTGGACTTGTACATGTGCCTCGCTTGGAAGACTGGCCTGTTAT
genomic: ACATGGGTTAAGCAGAATCGTCCTCTGGAGGAAACTGATATAGTTCTCTGgttggttaaa ... tgaatttcagGTATGTTTTTGGACTTGTACATGTGCCTCGCTTGGAAGACTGGCCTGTTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgagagcttaactggattacttttccattaatggctattgtgttgaatttcagGTATGTTTTTGGACTTGTACATGTGCCTCGCTTGGAAGACTGGCCTGTTATGCCAGTGGAACGCATCGGTTTTATGCTTCAG
cattaat putative branch site (score: 3)
attactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attctcttgcccattcttgatttgccttagtgcaatttaccatttactgagagcttaactggattacttttccattaatggctattgtgttgaatttcagGTATGTTTTTGGACTTGTACATGTGCCTCGCTTGGAAGACTGGCCTGTTATGCCAGTGGAACGCATCGGTTTTATGCTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - -cccattc
- - - - - - - - - - - tgcctta
- - - - - - - - - - - - - - - - - - - - catttac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatggct