Sequence
atgc intronic sequence ATGC exonic sequence...tgttcctctgtttaaacactgttgattcatacattttctttcatacgtatctcccattaagagttcattgatgtcatacctaacttctatttgcatgtagGAATGGGCTCTCAACCCAAGCGAAACAGATATCTTTTCTTGAAACTTTACCGGATGACACCCAAATCTCTAGAGAAGAGAGAGCATTTCGCTTTTGGATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s1365g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G45800.1 (Glycine max), 3'ss of exon 8
--tgttcctctgtttaaac--actgttgattcatacattttctttcatacgtatctcccattaagagttcattgatgtcatacctaacttctatttgcatgtagGAATGGGCTCTCAACCCAAGCGAAACAGATATCTTTTCTTGAAACTTTACCGGATGACACCCAAATCTCTAGAGAAGAGAGAGCATTTCGCTTTTGGATA
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gtttctccaccttataggtttattaaaaatttgaa-atatgctaatatatttctgggggtttgagaaatatatgcaagctaactcaatttccctct---tacagGAATGGACTGTCAACCCAAGCAAAACAGAGTTCTCTCCTTGAAAACTTGCTAGATGACACCCAAGACTCTAGAGAAGAGAGAGCATTTCGCCTCTGGATT
upper sequence: Vv00s1365g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G22450.1 (Glycine max), 3'ss of exon 9
---tgttcctctgtttaaacactgttga-ttcatacattttctttcatacgtatctcccattaagagttcattgatgtcatacctaacttctatttgcatgtagGAATGGGCTCTCAACCCAAGCGAAACAG---ATATCTTTTCTTGAAACTTTACCGGATGACACCCAAATCTCTAGAGAAGAGAGAGCATTTCGCTTTTGGATA
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tagctaaattgtggttaaggtctgataagtttgaatacacccaacttttcttttggtttttaagatatatatggaagcta-actcaatttccctct---tgtagGAATGGACTTTCAGCCCAGACAAAACAACAAATGTCTCTCCTTGAGACATTTCCAGATGACACCCAAGACTCTAGAGAAGAAAGAGCATTTCGCCTATGG---
upper sequence: Vv00s1365g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G09360.1 (Glycine max), 3'ss of exon 8
--tgttcctctgtttaaacactgttga-ttcatacattttctttcatacgtatctcccattaagagttcattgatgtcatacctaacttctatttgcatgtagGAATGGGCTCTCAACCCAAGCGAAA---CAGATATCTTTTCTTGAAACTTTACCGGATGACACCCAAATCTCTAGAGAAGAGAGAGCATTTCGCTTTTGGATA
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agctaaattgtggtcaaggtctgataagtttgaatacacccgatttttatttttggtttttaagatatatacgcctactaactcaacttccctct---tgtagGAATGGACTTTCAGCCCAGACAAAACAACAGATGTCTCTCCTTGAGACATTTCCAGATGACACCCTAGACTCTAGAGAAGAAAGAGCATTTCGCCTTTGG---
upper sequence: Vv00s1365g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G48460.1 (Arabidopsis thaliana), 3'ss of exon 8
tgttcctctgtttaaacactgttgattcatacattttctttcatacgtatc--tcccattaagagttcattgatgtcatacctaacttctatt---tgcatgtagGAATGGGCTCTCAACCCAAGCGAAACAGATATCTTTTCTTGAAACTTTACCGGATGACACCCAAATCTCTAGAGAAGAGAGAGCATTTCGCTTTTGGATA
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------gtgaaatacacttcaatattaaaaacagttcatgtaaaagggaacatttttagtgtgggtctaacag-atcagaactatgttttctttctttcccgcagGAACGGACTTTCAACACAAACGAAACAGATATCTTTTCTTGAAAATCTAGCTGATGACATTCAAATTTCAAGAGAAGAAAAAGCATTCCGGTTTTGGATTMapped 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|161709660|gb|FC058431.1|FC058431EST: GGTTCTCCAAATCTTAACCTTGCTTTTGTTGCACACATTTTTCAACATAG GAATGGGCTCTCAACCCAAGCGAAACAGATATCTTTTCTTGAAACTTTACC
genomic: GGTTCTCCAAATCTTAACCTTGCTTTTGTTGCACACGTTTTTCAACATAGgtgaggatgg ... ttgcatgtagGAATGGGCTCTCAACCCAAGCGAAACAGATATCTTTTCTTGAAACTTTACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgtatctcccattaagagttcattgatgtcatacctaacttctatttgcatgtagGAATGGGCTCTCAACCCAAGCGAAACAGATATCTTTTCTTGAAACTTTACCGGATGACACCCAAATCTCTAGAGAAGAGAGAGCATTTCGCTTTTGGATA
acctaac putative branch site (score: 2)
cttctattt CT-rich tract
ttctattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttcctctgtttaaacactgttgattcatacattttctttcatacgtatctcccattaagagttcattgatgtcatacctaacttctatttgcatgtagGAATGGGCTCTCAACCCAAGCGAAACAGATATCTTTTCTTGAAACTTTACCGGATGACACCCAAATCTCTAGAGAAGAGAGAGCATTTCGCTTTTGGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - cctctgt
- - - - - - taaacac
- - - - - - - - - - - - - -catacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catacct