Sequence
atgc intronic sequence ATGC exonic sequencegtggtttactatatttctttctttagtattttgtaggtccttgttttcccttttctttagtaatgctgatgcagtagacatgtatgcctaacttttttttacctccaaccagTACTCCAACTGGTGTTGAAACACCTGATGTTATCGACCTTCGGAAGCTGCAGAGGAAGGAGACTGACAAGCAGGCAGAACGGCCGCTGTACCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G132060_T02 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA13G25110.2 (Glycine max), 3'ss of exon 12
gtggtttactatatttctttctttagtattttgtaggtccttgttttcccttttctttagtaatgctgatgcagtagacatgtatgcctaacttttttttacctccaaccagTACTCCAACTGGTGTTGAAACACCTGATGTTATCGACCTTCGGAAGCTGCAGAGGAAGGAGACTGACAAGCAGGCAGAACGGCCGCTGTACCAG
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--ggttgatagtctgtcaaggtctggtttt------gggcttgttgtataatctcctgtgtt-tgtgaactcatt---tatttcctcttttctgttgcattttccttcccagCACTCCCACTGGAGTGGAGACACCTGATGTTATTGACCTTCGTAAGCAGCAGAGGAAGGAACCTGAAAAGCCTCTTTATCAA------------
upper sequence: GRMZM2G132060_T02 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 12
gtggtttactatatttctttctttagtattttgtaggtccttgttttcccttttctttagtaatgctgatgcagtagacatgtatgcctaacttttttttac----ctccaac-cagTACTCCAACTGGTGTTGAAACACCTGATGTTATCGACCTTCGGAAGCTGCAGAGGAAGGAGACTGACAAGCAGGCAGAACGGCCGCTGTACCAG
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--------------ttgggggtggagtggagtg-gggctggtacggttggttatatgtaatc-tactgtcactatcatctcatct-cttaactctttcctatgcattttcacctcagCACTCCCACTGGAGTGGAAACACCTGATGTTATCGACCTCCGGAAGCAACAGAGGAAGGAGCCTGAGAGGCCTCTTTATCAA------------
upper sequence: GRMZM2G132060_T02 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA13G31550.2 (Glycine max), 3'ss of exon 12
gtggtttactatatttctttctttagtattttgtaggtccttgttttcccttttctttagtaatgctgatgcagtagacatgtatgcctaacttttttttacctccaaccagTACTCCAACTGGTGTTGAAACACCTGATGTTATCGACCTTCGGAAGCTGCAGAGGAAGGAGACTGACAAGCAGGCAGAACGGCCGCTGTACCAG
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-aaatgaactaatctcatggatagaatagttaacagatctttgagtgtaaatttctt--atcat-ctcatctcttaacccttt---tcctatgcattttcacct-----cagCACTCCCACTGGAGTGGAAACACCTGATGTTATTGACCTCCGGAAGCAACAGAGGAAGGAGCCTGAGAGGCCTCTTTATCAA------------
upper sequence: GRMZM2G132060_T02 (Zea mays), 3'ss of exon 11
lower sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 4
gtggtttactatatttctttctttagtattttgtaggtccttgttttcccttttctttagtaatgctgatgcagtagacatgtatgcctaacttttttttacctccaaccagTACTCCAACTGGTGTTGAAACACCTGATGTTATCGACCTTCGGAAGCTGCAGAGGAAGGAGACTGACAAGCAGGCAGAACGGCCGCTGTACCAG
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----------gggaccattagtaaggagtctgggcaagtctttctgcatatcatcttaagaaacttgtaatctttattaatgatcactt--tttttccctcctcttattcagCACCCCAACTGGTGTTGAGACACCTGATGTTATTGACCTACGTAAGCAACAGAGGAAGGAGCCAGAGAGGCCACTTTATCAA------------Mapped 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|61118623|gb|DN559584.1|DN559584EST: AGTCTGTCGATACCATCTCAAG TACTCCAACTGGTGTTGAAACACCTGATGTTATCGACCTTCGGAAGCTGCA
genomic: AGTCTGTCGATACCATCTCAAGgtggtttact ... ctccaaccagTACTCCAACTGGTGTTGAAACACCTGATGTTATCGACCTTCGGAAGCTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtaatgctgatgcagtagacatgtatgcctaacttttttttacctccaaccagTACTCCAACTGGTGTTGAAACACCTGATGTTATCGACCTTCGGAAGCTGCAGAGGAAGGAGACTGACAAGCAGGCAGAACGGCCGCTGTACCAG
gcctaac putative branch site (score: 2)
cttttttttacctcc CT-rich tract
taactttttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggtttactatatttctttctttagtattttgtaggtccttgttttcccttttctttagtaatgctgatgcagtagacatgtatgcctaacttttttttacctccaaccagTACTCCAACTGGTGTTGAAACACCTGATGTTATCGACCTTCGGAAGCTGCAGAGGAAGGAGACTGACAAGCAGGCAGAACGGCCGCTGTACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA