Sequence
atgc intronic sequence ATGC exonic sequence...cggattacatttgttcacgctgttttctttatatagtcttaacagtattctttgtataatgtttgccaaattgataatcttggctcgtgatctgatgcagATACTTCTCATATGAGCACTTTTATGTGATCTATTGCAAATTCTGGGAGCTGGATGCAGACCACGATTTTTTGATTGATAAGGAGAACCTCATCAAATAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G104254_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv14s0036g00750.t01 (Vitis vinifera), 3'ss of exon 4
---cggattacatttgttcacgctgttttctttatatagtct-taacagtattctttgtataatgtttgccaaattgataatcttggctcgtgatctgat-gcagATACTTCTCATATGAGCACTTTTATGTGATCTATTGCAAATTCTGGGAGCTGGATGCAGACCACGATTTTTTGATTGATAAGGAGAACCTCATCAAATAT
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tatttgtgggaatactctcataacatttttagcatgtactgtgtggtattaaaattttaacaccatt-----gcttttttttttttgattatgcccttaccatagGTACTTCTCTTATGAACACTTCTATGTTATATACTGCAAGTTCTGGGAGCTGGATACCGACCATGATTTTTTGATTGATAAAGAGAACCTAATCAGATAT
upper sequence: GRMZM2G104254_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S7_163V6.1 (Physcomitrella patens), 3'ss of exon 7
---cggattacatttgttcacgctgttttctttatatagtcttaacagtattctttgtataatgtttgccaaattgataatcttggctcgtgatctgatgcagATACTTCTCATATGAGCACTTTTATGTGATCTATTGCAAATTCTGGGAGCTGGATGCAGACCACGATTTTTTGATTGATAAGGAGAACCTCATCAAATAT
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tatcagtttgccctcacgaaaagtaattatgataccacgacgtgagcttaagtttctgatcatgtgcccttag--gctaaatattgtaagcgcttcg-tgcagTTACTTCTCATATGAACATTTTTATGTCATATATTGCAAGTTCTGGGAGCTGGATTCAGATCACGATTTTTTAATAGACAAAGATGATCTCCTTCGATAT
upper sequence: GRMZM2G104254_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S147_62V6.2 (Physcomitrella patens), 3'ss of exon 7
cggattacatttgttcacgctgttttctttatatagtcttaacagtattctttgtataatgtttgccaaattgataatcttggctcgtgatc---tgatgcagATACTTCTCATATGAGCACTTTTATGTGATCTATTGCAAATTCTGGGAGCTGGATGCAGACCACGATTTTTTGATTGATAAGGAGAACCTCATCAAATAT
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-tattggcatgccctca-atagaagacagtatggtacattgat-gtgaatttaggtttctacttgtgtatctgtaggctcatccacgtaatcgcttcgtgcagGTACTTCTCATATGAACATTTTTATGTCATATATTGCAAATTCTGGGAGCTGGATTCAGATCACGACTTTTTGATAGACAAAGATGACCTTCTTCGATATMapped 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|60352587|gb|DN219560.1|DN219560EST: GCTGCACTTCAGCAGTTAGATGAGGAAGAAGATATCAACAAAGTGTTGAG ATACTTCTCATATGAGCACTTTTATGTGATCTATTGCAAATTCTGGGAGCT
genomic: GCTGCACTTCAGCAGTTAGATGAGGAAGAAGATATCAACAAAGTGTTGAGgtaattaata ... tctgatgcagATACTTCTCATATGAGCACTTTTATGTGATCTATTGCAAATTCTGGGAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattctttgtataatgtttgccaaattgataatcttggctcgtgatctgatgcagATACTTCTCATATGAGCACTTTTATGTGATCTATTGCAAATTCTGGGAGCTGGATGCAGACCACGATTTTTTGATTGATAAGGAGAACCTCATCAAATAT
atctgat putative branch site (score: 4)
tttgtataatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cggattacatttgttcacgctgttttctttatatagtcttaacagtattctttgtataatgtttgccaaattgataatcttggctcgtgatctgatgcagATACTTCTCATATGAGCACTTTTATGTGATCTATTGCAAATTCTGGGAGCTGGATGCAGACCACGATTTTTTGATTGATAAGGAGAACCTCATCAAATAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - -tacattt
- - - - - - - -cacgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctcgtg