Sequence
atgc intronic sequence ATGC exonic sequencegtacgtctgccaccaatgattgagtggcctttttgttcaggtttgaatatttttttatgggcttagatttaatgggtgttctgcctctagGGCTGCAAAGGTGCGGTAAAAGCTGCCGTCTCCGGTGGACTAACTACCTGAGGCCAGATATCAAGAGGGGTCGTTTCTCTTTCGAAGAGGAGGAGACAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0203g00070.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G031323_T01 (Zea mays), 3'ss of exon 1
------gtacgtctgccaccaatga--------ttgagtggcctttttgttca-ggtttgaatatttttttatgggcttagatttaatgggtgttct----gcctctagGGCTGCAAAGGTGCGGTAAAAGCTGCCGTCTCCGGTGGACTAACTACCTGAGGCCAGATATCAAGAGGGGTCGTTTCTCTTTCGAAGAGGAGGAGACAAT
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gtgagcgccgccctgaccccgacggaactctcgtcccatgaatcctacgcatatagtgtagacatattcatgcatctcgtgacacatcgatccttctcgtgacacacagGGCTCGCACGGTGCGGGAAGAGCTGCCGGCTACGGTGGACTAACTATCTGAGGCCGGACATCAAGCGCGGCCGCTTCTCCTTCGACGAGGAGGAGACAAT
upper sequence: Vv00s0203g00070.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G166337_T01 (Zea mays), 3'ss of exon 2
------gtacg-tctgccaccaatgattgagtggcctttttgttcaggtttgaatatttttttatgggcttagatttaatgggtgttctgcctctagGGCTGCAAAGGTGCGGTAAAAGCTGCCGTCTCCGGTGGACTAACTACCTGAGGCCAGATATCAAGAGGGGTCGTTTCTCTTTCGAAGAGGAGGAGACAAT
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gtgagcgagcgacctgctggccccgatcga-cgtcgatcatgcgcatatatacacatatccatgctcacctcgatcgtccttctcatgtcatggcagGGCTCGCACGGTGCGGGAAGAGCTGCCGGCTGCGGTGGACTAACTACCTGAGGCCGGACATCAAGCGCGGCCGCTTCTCCTTCGAGGAGGAGGAGGCTAT
upper sequence: Vv00s0203g00070.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G32090.1 (Glycine max), 3'ss of exon 1
gtacgtctgccaccaatgattgagtggcctttttg--ttcaggtttgaatatttttttatgggcttagatt--taatgggtg-ttctgcctc--tagGGCTGCAAAGGTGCGGTAAAAGCTGCCGTCTCCGGTGGACTAACTACCTGAGGCCAGATATCAAGAGGGGTCGTTTCTCTTTCGAAGAGGAGGAGACAAT
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gtatgtcaccaaattaaactaaacttaacaaaatggctctctttttttttttttttttgttaatttcaactaataatggttaattttggttcattagGGTTGCAAAGGTGTGGAAAGAGTTGCCGTCTCCGTTGGACAAACTATCTACGACCAGATATAAAGCGAGGTCGGTTTTCATTTGAAGAGGAAGAGACAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaggtttgaatatttttttatgggcttagatttaatgggtgttctgcctctagGGCTGCAAAGGTGCGGTAAAAGCTGCCGTCTCCGGTGGACTAACTACCTGAGGCCAGATATCAAGAGGGGTCGTTTCTCTTTCGAAGAGGAGGAGACAAT
atttaat putative branch site (score: 4)
ttctgcctct putative PPT
tttgaatattttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtctgccaccaatgattgagtggcctttttgttcaggtttgaatatttttttatgggcttagatttaatgggtgttctgcctctagGGCTGCAAAGGTGCGGTAAAAGCTGCCGTCTCCGGTGGACTAACTACCTGAGGCCAGATATCAAGAGGGGTCGTTTCTCTTTCGAAGAGGAGGAGACAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA