Sequence
atgc intronic sequence ATGC exonic sequence...atcaagtgttgtctgataggaaaaaaattgaaatcgtgattttctgcattttggttcttctccaatatttcaaacactaacgtggctcattttgtttcagGACACATAGGCATCACAGTCGATGACACATACAAGGCATGCGAAAGATTTGAACGTCTAGGGGTTGAGTTTGTAAAAAAACCAGATGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g00460.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G125310_T01 (Zea mays), 3'ss of exon 6
-----------------------------------------atcaagtgttgtc----tgataggaaaaaaattgaaatcgtgattttctgcattttggttcttctccaatatttcaaacactaacgtg-gctca-ttttgtt---tcagGACACATAGGCATCACAGTCGATGACACATACAAGGCATGCGAAAGATTTGAACGTCTAGGGGTTGAGTTTGTAAAAAAACCAGATGATG
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gtatgtgctttgacaatttatgttcaattgaaatgactgacagtttctgtttccgaaatcataggcatagtttcggtgctgtaagata-tatataattgtgaaacacatattgctctaacgcttgtatttgctcacttttgttcattcagGTCATATAGGAGTAACTGTGGATGATGTCCACAAGGCATGTGAACGCTTTGAACGTCTTGGGGTTGAGTTTGTGAAGAAACCTGATGATG
upper sequence: Vv06s0061g00460.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G08470.1 (Glycine max), 3'ss of exon 6
atcaagtgttgtctgataggaaaaaaattgaaatcgtgattttctgcattttggttcttctccaatat---ttcaaacactaacgtggctcattttgtttcagGACACATAGGCATCACAGTCGATGACACATACAAGGCATGCGAAAGATTTGAACGTCTAGGGGTTGAGTTTGTAAAAAAACCAGATGATG
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tacttccatggccatttactagatttatttata--gtattctttgacttattggataaataggagattgaattctaatactaagttgtcttcctgtata-cagGACACATTGGTATAACTGTTGATGACACATACAAGGCATGTGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAGCCAGATGATG
upper sequence: Vv06s0061g00460.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G20000.3 (Glycine max), 3'ss of exon 6
atcaagtgttgtctgataggaaaaaaattgaaatcg--tgattttctgcatttt-----ggttcttctccaatatttcaaacactaacgtggctcattttgtttcagGACACATAGGCATCACAGTCGATGACACATACAAGGCATGCGAAAGATTTGAACGTCTAGGGGTTGAGTTTGTAAAAAAACCAGATGATG
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------ggctatttactagatttatttatagtattctttgacttattggataaataggagattgaattctaatagtgagttcaccaagttgtctttctgtata-cagGACACATTGGTGTAACTGTTGATGACACATACAAGGCATGTGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGMapped 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|110407172|gb|EC972769.1|EC972769EST: TCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTG GACACATAGGCATCACAGTCGATGACACATACAAGGCATGCGAAAGATTTG
genomic: TCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTGgtatgtatag ... tttgtttcagGACACATAGGCATCACAGTCGATGACACATACAAGGCATGCGAAAGATTTG
EST:
gi|22010774|gb|BQ795808.1|BQ795808EST: TCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTG GACACATAGGCATCACAGTCGATGACACATACAAGGCATGCGAAAGATTTG
genomic: TCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTGgtatgtatag ... tttgtttcagGACACATAGGCATCACAGTCGATGACACATACAAGGCATGCGAAAGATTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcattttggttcttctccaatatttcaaacactaacgtggctcattttgtttcagGACACATAGGCATCACAGTCGATGACACATACAAGGCATGCGAAAGATTTGAACGTCTAGGGGTTGAGTTTGTAAAAAAACCAGATGATG
cactaac putative branch site (score: 1)
ttttgtttc putative PPT
aatatttcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcaagtgttgtctgataggaaaaaaattgaaatcgtgattttctgcattttggttcttctccaatatttcaaacactaacgtggctcattttgtttcagGACACATAGGCATCACAGTCGATGACACATACAAGGCATGCGAAAGATTTGAACGTCTAGGGGTTGAGTTTGTAAAAAAACCAGATGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- caagtgt
- - - - -tgtctga
- - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - -ttctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaacac