Sequence
atgc intronic sequence ATGC exonic sequencegtgcattcctgaaatgctgctgtctatctctccccctccaaactattttaaatatctgaaacatgaaaaattatgctcttttgctgcagGGTATCACAACCTATGAGTATGTTGTTGCCATGAGAACCCAGAGTGAACCTCCTGGACCATCTGTAGATGGAGGAGAGCAGCAAAGTATGCCATCTTCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0122g00920.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os04g49560.1 (Oryza sativa), 3'ss of exon 8
gtgcattcctgaaat-gctgctgtctatctctccccctccaaactattttaaatatctgaaacatgaaaa------attatgctcttttgctgcagGGTATCACAACCTATGAGTATGTTGTTGCCATGAGAACCCAGAGTGAACCTCCTGGACCATCTGTAGATGGAGGAGAGCAGCAAAGTATGCCATCTTCTC---
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----gttggtgattttactctcctttgtgaagctttagtcacatttttctccattgatggaatatgatatggttttgttgcgccacttttttgcagGGCATCACAACTTATGAATATGTTGTGGCAATGAGGGCTCAGAGTGAACCTCCTGGTCCTTCTGTCAATGATGAA---CAACAAAGCCTGCCATCATCTCCCA
upper sequence: Vv18s0122g00920.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G010011_T02 (Zea mays), 3'ss of exon 9
gtgcattcctgaaatgctgctgtctatctc-tccccctccaaactatttta-aatatctgaa---acatgaaaa-----attatgctcttttgctgcagGGTATCACAACCTATGAGTATGTTGTTGCCATGAGAACCCAGAGTGAACCTCCTGGACCATCTGTAGATGGAGGAGAGCAGCAAAGTATGCCATCTTCTC---
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----gttagtcacttgtcattatttgtctcattttactatatcgtggccaagaatgcatcaagtgatatggttactcttgttgcacttttttttttcagGGCATAACAACTTATGAATATGTTGTGGCCATGAGGGCTCAGAGTGAACCTCCTGGACCTTCTGTCAATGATG---ACCAACAAAGCTTGGCATCTTCTCCAA
upper sequence: Vv18s0122g00920.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G01720.1 (Glycine max), 3'ss of exon 8
gtgcattcctgaaatgctgctgtctatctctccccctccaaactattttaaatatctgaaacatgaaaaattatgctcttttgctgcagGGTATCACAACCTATGAGTATGTTGTTGCCATGAGAACCCAGAGTGAACCTCCTGGACCATCTGTAGATGGAGGAGAGCAGCAAAGTATGCCATCTTCTC
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---------------------gtatattcatgaacttttcctcctattgacatgt-----atattctaagctgtctttttcttttacagGGTATCACAACTTACGAGTATGTTGTTGCCATGAGAACTCTAAGTGAACCACCTGGGCCTTCAGTTGATGGGGGTGAACAGCAGAGTCTACCATCGTCTC
upper sequence: Vv18s0122g00920.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G01810.1 (Glycine max), 3'ss of exon 10
gtgcattcctgaaatgctgctgtctatctctccccctccaaactattttaaatatctgaaacatgaaaaattatgctcttttgctgcagGGTATCACAACCTATGAGTATGTTGTTGCCATGAGAACCCAGAGTGAACCTCCTGGACCATCTGTAGATGGAGGAGAGCAGCAAAGTATGCCATCTTCTC
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---------------------gtatattcatgaacttttcctcctatcgacatat-----atattctaagctgtctttttcttttacagGGTATCACAACTTACGAGTATGTTGTGGCCATGCGAACTCTAAGTGAACCACCTGGGCCTTCAGTTGATGGGGGTGAACAGCAGAGTCTACCATCGTCTC
upper sequence: Vv18s0122g00920.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT2G33640.1 (Arabidopsis thaliana), 3'ss of exon 8
---------------------gtgc-attcctgaaatgctgctgtctatctctccccctccaaactattttaaatatctgaaacatgaaaaattatgctcttttgctgcagGGTATCACAACCTATGAGTATGTTGTTGCCATGAGAACCCAGAGTGAACCTCCTGGACCATCTGTAGATGGAGGAGAGCAGCAAAGTATGCCATCTTCTC
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gttttgtatatactttttcttgcaccattttttgaattctacgctccactgacaaacacataaggaaacacaaag--ctgagcgttgatatgtcac-ttttgtggctgtagGGAATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCACTTGGAACATCTGTAGATGAGCTAGACCAAACAAGCCAGTATCCTTCACMapped 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|34545619|gb|CF513851.1|CF513851EST: ATGATTCTGATTCGAAAG GGTATCACAACCTATGAGTATGTTGTTGCCATGAGAACCCAGAGTGAACCT
genomic: ATGATTCTGATGCGAAAGgtgcattcct ... tttgctgcagGGTATCACAACCTATGAGTATGTTGTTGCCATGAGAACCCAGAGTGAACCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctccaaactattttaaatatctgaaacatgaaaaattatgctcttttgctgcagGGTATCACAACCTATGAGTATGTTGTTGCCATGAGAACCCAGAGTGAACCTCCTGGACCATCTGTAGATGGAGGAGAGCAGCAAAGTATGCCATCTTCTC
ctcttttgct CT-rich tract
aaactattttaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcattcctgaaatgctgctgtctatctctccccctccaaactattttaaatatctgaaacatgaaaaattatgctcttttgctgcagGGTATCACAACCTATGAGTATGTTGTTGCCATGAGAACCCAGAGTGAACCTCCTGGACCATCTGTAGATGGAGGAGAGCAGCAAAGTATGCCATCTTCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG