Sequence
atgc intronic sequence ATGC exonic sequence...tgtgctaatttatgtttttgtgggtgttgagcaatagtgttttagtccaaatgagcatgtcttaatatctgggtatctttttgcttctgggattttacagACATGTCTTGTTTTCAAGGGCTCTTCTTTTGCCCAGATGCAGCTTCTTTGCTGCTTCATAACTTCTGCATTTACCACATTGATGCTCCTGGACATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G467159_T01 (Zea mays), 3'ss of exon 3
tgtgctaatttatgtttttgtgggtgttgagcaatagtgttttagtccaaatgagcatgtcttaatatctgggtatctttttgcttctgggattttacagACATGTCTTGTTTTCAAGGGCTCTTCTTTTGCCCAGATGCAGCTTCTTTGCTGCTTCATAACTTCTGCATTTACCACATTGATGCTCCTGGACATGAG
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---------gtaagtttt-acgatcat--gcttaccctatgctaggctatttaagaattccacaacactgacctaagttcttattgttgat------cagATATGTCTTGCTTCCAAGGGCTACTCTTCTGTCCTGAAGCAGCTTCATTGCTGCTTCATAATTTTTGCATTTACCATATCAGCCCCCCAGGACATGAG
upper sequence: Vv14s0030g01790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G36650.1 (Glycine max), 3'ss of exon 2
---------------------------------------------------------------------tgtgctaatt-tatgtttttgtg--ggtgttgagcaatagtg----------ttttagtccaaatgagcatgtcttaatatctgggtatctt--tttgcttctgggattt--tacagACATGTCTTGTTTTCAAGGGCTCTTCTTTTGCCCAGATGCAGCTTCTTTGCTGCTTCATAACTTCTGCATTTACCACATTGATGCTCCTGGACATGAG
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gtaagtttgtaaccttatttatattgcttttgtttttaatatgaatggatttgctcacaaaatgttccatgtcttgtctatgcggtttggtgaagatgtttagaattagaagcaaagcaaccttttgtttttgcaattttggattactgtataattaccacaacttgattttggccttttctgcagATGTCTCTTGTTTCCAGGGTCTGTTGTTCTGCCCAGAGGCAGCTTCTTTGTTGCTTCATAACTTCTGCATTTATCACATTGATGCTCCGGGACATGAG
upper sequence: Vv14s0030g01790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G30270.2 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------------------------------tgtg-ctaatttatgtttttgtgggtgttgagcaatagtgttttagtccaaatgagcatgtcttaatatctgggtatctt--tttgcttctgggatttt-acagACATGTCTTGTTTTCAAGGGCTCTTCTTTTGCCCAGATGCAGCTTCTTTGCTGCTTCATAACTTCTGCATTTACCACATTGATGCTCCTGGACATGAG
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gtaaccttcttatttatattgcttttgtttgcatatattttcaatatgaatatgaatgaatttcctcacaaaatgttccatgtcttgtctatgcgattcagtgaagatgttttgaattagaagcaaagcaacctttgtgtttgtagttttggattactatataattacaataacttgattttggcttttttgcagATGTGTCTTGTTTCCAGGGTCTTTTATTCTGCCCAGAGGCAGCTTCTTTGTTGCTTCATAACTTCTGCATTTATCACATTGATGCTCCGGGGCATGAGMapped 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|33404447|gb|CF210074.1|CF210074EST: GGATCAGGAAAAGCCTGCTTTGATAACATACCCAGATGTTGCTCTCAATT ACATGTCTTGTTTTCAAGGGCTCTTCTTTTGCCCAGATGCAGCTTCTTTGC
genomic: GGATCAGGAAAAGCCTGCTTTGATAACATACCCAGATGTTGCTCTCAATTgtatgcctca ... gattttacagACATGTCTTGTTTTCAAGGGCTCTTCTTTTGCCCAGATGCAGCTTCTTTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccaaatgagcatgtcttaatatctgggtatctttttgcttctgggattttacagACATGTCTTGTTTTCAAGGGCTCTTCTTTTGCCCAGATGCAGCTTCTTTGCTGCTTCATAACTTCTGCATTTACCACATTGATGCTCCTGGACATGAG
tcttaat putative branch site (score: 3)
tcttaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgctaatttatgtttttgtgggtgttgagcaatagtgttttagtccaaatgagcatgtcttaatatctgggtatctttttgcttctgggattttacagACATGTCTTGTTTTCAAGGGCTCTTCTTTTGCCCAGATGCAGCTTCTTTGCTGCTTCATAACTTCTGCATTTACCACATTGATGCTCCTGGACATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - -gtgggtg
- - - - - - - - - - - - - - - - - - - - - - - ccaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgtc