Sequence
atgc intronic sequence ATGC exonic sequence...tggtaaaaactaccttttcttttgctatttacgattttctgaagttatattgcatctgtttgaactgagtgctcatgattgatcctgttgttgcctacagCAATTAAAAAGCGAATGGAGAAAGATGTTGATGAAGTTGGAAAAATTGCCCGTTCTATAAAAGCCAAAGTTGAAGAACTTGACAAAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G044527_T01 (Zea mays), 3'ss of exon 4
tggtaaa-aactaccttttcttttgctatttacgattttctgaagttatattgcatctgtttgaa------ctgagtgctcatgattg-----atcctgttgttgcctacagCAATTAAAAAGCGAATGGAGAAAGATGTTGATGAAGTTGGAAAAATTGCCCGTTCTATAAAAGCCAAAGTTGAAGAACTTGACAAAGAG
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--gtaagtgtttgtttattctagcagacttaaccattatctgaaatatgtatgcattcttttagaaattgcctctatgcttatggttagaagcaacaattcttttttcacagCAATTAAGCAGCGGATGGAGAAAGATATTGATGAAGTGGGGAAAATTGCTCGTCAGGCAAAGACAAAAGTTGATGAACTGGAAAGAGAT
upper sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G330772_T01 (Zea mays), 3'ss of exon 4
tggtaaaaactaccttttcttttgctatttacgattttctgaagt-tatattgcatctgtttgaa----ctgagtgctcatgattgatcctgttg-----ttgcctacagCAATTAAAAAGCGAATGGAGAAAGATGTTGATGAAGTTGGAAAAATTGCCCGTTCTATAAAAGCCAAAGTTGAAGAACTTGACAAAGAG
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-gtcagtagttgtttattctagaagatttaaccttcgtctgaaatatatatgcactcttttggaaatacctctatgcttaacgttagacgcaataattcttttttcacagCAATTAAGCAGCGGATGGAGAAAGATATTGATGAAGTGGGGAAAATTGCTCGTCAGGCGAAGACAAAAGTTGATGAATTGGAAAAAGAC
upper sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G27050.1 (Glycine max), 3'ss of exon 4
tggtaaaaac-taccttttcttttgctatttacgattttctgaagttatattgcatctgtttgaactgagtgctcatgattgatcctgttgttgcctacagCAATTAAAAAGCGAATGGAGAAAGATGTTGATGAAGTTGGAAAAATTGCCCGTTCTATAAAAGCCAAAGTTGAAGAACTTGACAAAGAG
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tgataaaaggacagatttgaaggtagttgttctgcggatgcgaacgaagttcacaagtgtt-aaactaattgcttcagcttgatcctatgattatttgcagCTATAAAGCAGAGAATGGAGAAAGATGTTGATGAAGTTAAGAAAACTGCACATTACTTAAAGACCAAAATTGAAGAACTGGACAAAGAG
upper sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G08080.1 (Arabidopsis thaliana), 3'ss of exon 4
----------------------------------------------------------------tggtaaaaactaccttttcttttgcta--tttacgatt--ttctgaagttatattgca----tctgtttgaactga-gtgctcatgattgatcctgttgttgcctacagCAATTAAAAAGCGAATGGAGAAAGATGTTGATGAAGTTGGAAAAATTGCCCGTTCTATAAAAGCCAAAGTTGAAGAACTTGACAAAGAG
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gtaatttttttttattttctacatgtttttgtatgcatatttttccggaactagtacaagctagtgaaagtaattaggaatttgttgactagcgttaggattaatgttagtgatttactataatcttacatatggtttggtgtgttgtgtgtttctccttatgtattggacagCGATAAAGAAGACAATGGAAAAAGACGTTGATGAAGTTGGAAGTATTGCCCGTTTCATAAAGGGGAAACTCGAGGAGTTGGACAGAGAGMapped 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|71857722|gb|DT006777.1|DT006777EST: GATGCACACGAGGAGTCAAAGGCTGTAACCAAGGCTGCTGCCATGAAAG CAATTAAAAAGCGAATGGAGAAAGATGTTGATGAAGTTGGAAAAATTGCCC
genomic: GATGCACACGAGGAGTCAAAGGCTGTAACCAAGGCTGCTGCCATGAAAGgtaaccttct ... ttgcctacagCAATTAAAAAGCGAATGGAGAAAGATGTTGATGAAGTTGGAAAAATTGCCC
EST:
gi|71865576|gb|DT014631.1|DT014631EST: GATGCACACGAGGAGTCAAAGGCTGTAACCAAGGCTGCTGCCATGAAAG CAATTAAAAAGCGAATGGAGAAAGATGTTGATGAAGTTGGAAAAATTGCCC
genomic: GATGCACACGAGGAGTCAAAGGCTGTAACCAAGGCTGCTGCCATGAAAGgtaaccttct ... ttgcctacagCAATTAAAAAGCGAATGGAGAAAGATGTTGATGAAGTTGGAAAAATTGCCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatattgcatctgtttgaactgagtgctcatgattgatcctgttgttgcctacagCAATTAAAAAGCGAATGGAGAAAGATGTTGATGAAGTTGGAAAAATTGCCCGTTCTATAAAAGCCAAAGTTGAAGAACTTGACAAAGAG
gattgat putative branch site (score: 4)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggtaaaaactaccttttcttttgctatttacgattttctgaagttatattgcatctgtttgaactgagtgctcatgattgatcctgttgttgcctacagCAATTAAAAAGCGAATGGAGAAAGATGTTGATGAAGTTGGAAAAATTGCCCGTTCTATAAAAGCCAAAGTTGAAGAACTTGACAAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- gtaaaaa
- - - - - - - - - cttttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgttg