Sequence
atgc intronic sequence ATGC exonic sequence...ttgccagacataatatattagtgttgtgtgttatttttcttaaataggtaacttggatgacaaggttcctgagagggttctgtatgaaattcttattcagGTAGGTCGTGTTGTAGACCTACACATACCTCGTGACAAGGAAACTAGCCGACCAAAAGGCTATGCTTTTGCTGAGTATGAAACAGAGGAGATTGCCCAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G175676_T08 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g35274.2 (Oryza sativa), 3'ss of exon 2
-----------------------------------------------------ttgccagacataatatattagtgttgtgtgttatttttcttaaataggtaacttggatgacaaggttcctgagagggttctgtatgaaattcttattcagGTAGGTCGTGTTGTAGACCTACACATACCTCGTGACAAGGAAACTAGCCGACCAAAAGGCTATGCTTTTGCTGAGTATGAAACAGAGGAGATTGCCCAAT
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atatttcacaatgattgttcttatgctactttgtctcttgtttttgtcttcagctacaataagctgtataatttcgctaactcttatttttcttaaatagGTAACTTGGATGAAAAGGTACCTGAGAGGGTCTTGTATGAGATTCTTATTCAGGTAGGTCGTGTTGTAGACCTACACATACCACGTGACAAGGAAACTAA-----------------------------------------------------
upper sequence: GRMZM2G175676_T08 (Zea mays), 3'ss of exon 1
lower sequence: Vv02s0109g00370.t01 (Vitis vinifera), 3'ss of exon 1
---------------------------------------------------ttgccagacataatatattagtgttgtgtgttatttt--tcttaaataggtaacttggatgacaaggttcctgagagggttctgtatgaaattcttattcagGTAGGTCGTGTTGTAGACCTACACATACCTCGTGACAAGGAAACTAGCCGACCAAAAGGCTATGCTTTTGCTGAGTATGAAACAGAGGAGATTGCCCAAT
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agcatgttatttatctgcctttatgttcaagttatttaaataataattcatataaaaaggctaacgtgttttaattggttttaatttcaattgtacatagGTAATTTGGATGAGAGGGTAAGCGAGAGGGTTTTGTATGATATTCTGATTCAGGTAGGGAGGGTGGTGGACTTATACATCCCTCGTGACAAGGAAACTGA-----------------------------------------------------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|211052383|gb|FL097884.1|FL097884EST: CCCAGATCCGGCGGCCATGGCAAGGAACCCGGGCTGCACCGTCTTCATAG GTAGGTCGTGTTGTAGACCTTCACATACCTCGTGACAAGGAAACTAGCCGA
genomic: CCCAGATCCGGCGGCCATGGCAAGGAACCCGGGCTGCACCGTCTTCATAGgtgagatctc ... tcttattcagGTAGGTCGTGTTGTAGACCTACACATACCTCGTGACAAGGAAACTAGCCGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggtaacttggatgacaaggttcctgagagggttctgtatgaaattcttattcagGTAGGTCGTGTTGTAGACCTACACATACCTCGTGACAAGGAAACTAGCCGACCAAAAGGCTATGCTTTTGCTGAGTATGAAACAGAGGAGATTGCCCAAT
aggtaac putative branch site (score: 3)
ttcttattc putative PPT
tatgaaattcttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgccagacataatatattagtgttgtgtgttatttttcttaaataggtaacttggatgacaaggttcctgagagggttctgtatgaaattcttattcagGTAGGTCGTGTTGTAGACCTACACATACCTCGTGACAAGGAAACTAGCCGACCAAAAGGCTATGCTTTTGCTGAGTATGAAACAGAGGAGATTGCCCAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- -ccagaca
- - - - - - - - - - -tgttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - ttggatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggttctg