Sequence
atgc intronic sequence ATGC exonic sequencegtttgtttgtttactccagtaacacttgatccattggttcaatttttaccttttctttttgaagattgattatgtgttctgttataaaatggaacaggacatcaatgcaatttttggtctttattattggcataatattttttatgttttgtacaaacagACGTGGGAGGAATCCGTTGGCCTTGGTTTTGGCTCCAACAAGAGAACTTGCACGGCAAGTGGAGAAGGAATTCTGTGAATCTGCCCCCAATTTGGATACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G407382_T02 (Zea mays), 3'ss of exon 2
gtttgtttgtttactccagtaacacttgatccattggttcaatttttaccttttctttttgaagattgattatgtgttctgttataaaatggaacaggacatcaatgcaatt-tttggtctttattat-tggcataatattttttatgttttgtacaaacagACGTGGGAGGAATCCGTTGGCCTTGGTTTTGGCTCCAACAAGAGAACTTGCACGGCAAGTGGAGAAGGAATTCTGTGAATCTGCCCCCAATTTGGATACA------------
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-----------------------------------------------------------------------gttcgtttctctttcacatgtggaattcttttaatttatctaccagggagatataatatattgtaataattgcatagtacgaagcatgcagatttggcagGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAATTTAGAGAATCTGCTCCC---TTGGACACCCTCTGTGTATAT
upper sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G407382_T01 (Zea mays), 3'ss of exon 2
gtttgtttgtttactccagtaacacttgatccattggttcaatttttaccttttctttttgaagattgattatgtgttctgttataaaatggaacaggacatcaatgcaattttt-ggtctttattat-tggcataatattttttatgttttgtacaaacagACGTGGGAGGAATCCGTTGGCCTTGGTTTTGGCTCCAACAAGAGAACTTGCACGGCAAGTGGAGAAGGAATTCTGTGAATCTGCCCCCAATTTGGATACA---
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-----------------------------------------------------------------------gttcgtttctctttcacatgtggaattcttttaatttatctaccagggagatataatatattgtaataattgcatagtacgaagcatgcagATTTGGCAGGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAATTTAGAGAATCTGCTCCC---TTGGACACCCTC
upper sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G080512_T01 (Zea mays), 3'ss of exon 2
gtttgtttgtttactccagtaacacttgatccattggttcaatttttaccttttctttttgaagattgattatgtgttctgttataaaatggaacaggacatcaatgcaattttt-ggtctttattat-tggcataatattttttatgttttgtacaaacagACGTGGGAGGAATCCGTTGGCCTTGGTTTTGGCTCCAACAAGAGAACTTGCACGGCAAGTGGAGAAGGAATTCTGTGAATCTGCCCCCAATTTGGATACA---
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-----------------------------------------------------------------------gttcgtttctctttcacatgtggaattcttttaatttatctaccagggagatagaatatattgtaataattgcatagtacgatgcatgcagAAATGGCAGGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAGTTTAGAGAATCTGCTCCC---TTGGACACCCTC
upper sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G14670.1 (Glycine max), 3'ss of exon 2
gtttgtttgtttactccagtaacacttgatccattggttcaatttttaccttttct--ttttgaagattgattatgtgttctgttataaaatggaacaggacatcaatgcaat----ttttggtctttattattggcataatattttttatgttttgtacaa-acagACGTGGGAGGAATCCGTTGGCCTTGGTTTTGGCTCCAACAAGAGAACTTGCACGGCAAGTGGAGAAGGAATTCTGTGAATCTGCCCCCAATTTGGATACA
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---------------------gtactttat--attagttacacttacatcttacttgaatctgtagtcttatttt----tctgcttgaaggaggattaggtaaccggtagtatatagtcttgatttgtgtctttaactaaacaatttttttttattgattgttgcagACAAGGAAGAAATCCTTTGGCTTTGGTTTTGGCTCCAACTAGAGAACTTGCGCGGCAGGTTGAGAAGGAATTCAATGAGGCTGCACCTAACTTGGCCACA
upper sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G41510.1 (Glycine max), 3'ss of exon 3
gtttgtttgtttactccagtaacacttgatccattggttcaatttttaccttttctttttgaagattgattatgtgttctgttataaaatggaacaggacatcaatgca-atttttggtctttattattggcataatat-tttttatgttttgtacaaacagACGTGGGAGGAATCCGTTGGCCTTGGTTTTGGCTCCAACAAGAGAACTTGCACGGCAAGTGGAGAAGGAATTCTGTGAATCTGCCCCCAATTTGGATACA
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---------------------gtactttatat-ttggtt--acacttacatcttacttgaatctgtagccttgtttttctgct-tgaagtaggattttctggtagtatatagtcttgatttgtgtctttaactaaacaaatttttgtggttgat-tattcagGCAAGGAAGACATCCTTTGGCTTTGGTTTTGGCTCCGACTAGAGAACTTGCGCGGCAGGTTGAGAAGGAATTCAATGAGGCTGCACCTAACTTGGCCATG
upper sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G03760.1 (Glycine max), 3'ss of exon 2
----gtttgtttgtttactccagtaacact-tgat------------ccattggttcaatttttacctt--ttctttttgaagattgattatgtgttctgttataa--aatggaacag--gacatcaatgcaatttttggtc--tttattattggcataatattttttatgttttgtacaaacagACGTGGGAGGAATCCGTTGGCCTTGGTTTTGGCTCCAACAAGAGAACTTGCACGGCAAGTGGAGAAGGAATTCTGTGAATCTGCCCCCAATTTGGATACA
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gttagttctattcttttttttaatgatatcgtgatgcttatgtttcgctatcacttgaatttgtaacttgtttctctgcgtgagttaaaggtggactaggcaattgctattggtgtggatgaaatcatggaaaatattgatttgttttttaactgtgcaagtttttttgtggttgatgtgg-cagGCGGGGGAGGGATCCTTTGGCTTTGGTTTTGGCTCCGACCAGAGAGCTTGCTCGACAGGTTGAAACGGAGTTCTGTGAGTCGGCACCTAATTTGGATACAMapped 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|33410545|gb|CF216172.1|CF216172EST: TTTGGGATTCCCATCATGGATAAAGTTATTCAATACAATGCTAAGCATGG ACGTGGGAGGAATCCATTAGCCTTGGTTTTGGCTCCAACAAGAGAACTTGC
genomic: TTTGGGATTCCCATCATGGATAAAGTTATTCAATACAATGCTAAGCATGGgtttgtttgt ... gtacaaacagACGTGGGAGGAATCCGTTGGCCTTGGTTTTGGCTCCAACAAGAGAACTTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcaatttttggtctttattattggcataatattttttatgttttgtacaaacagACGTGGGAGGAATCCGTTGGCCTTGGTTTTGGCTCCAACAAGAGAACTTGCACGGCAAGTGGAGAAGGAATTCTGTGAATCTGCCCCCAATTTGGATACA
tttattattggcataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtttgtttactccagtaacacttgatccattggttcaatttttaccttttctttttgaagattgattatgtgttctgttataaaatggaacaggacatcaatgcaatttttggtctttattattggcataatattttttatgttttgtacaaacagACGTGGGAGGAATCCGTTGGCCTTGGTTTTGGCTCCAACAAGAGAACTTGCACGGCAAGTGGAGAAGGAATTCTGTGAATCTGCCCCCAATTTGGATACA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA