Sequence
atgc intronic sequence ATGC exonic sequence...tcttgcgtttctgtatattgtcttcatgtagttcacttgctgtgatataatcatatagcccttaagctctgatagttttttcttttcgtttgcctaccagGAGACAAGTTCTTCCAGCTGTTCCATACCTTTTACATACTGTGCAGGTGTTCTTTGCTCATAGTATATAATACTTACTACTTTCATCCATATGCATCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G461569_T03 (Zea mays), 3'ss of exon 2
lower sequence: 13114.m00153 (Oryza sativa), 3'ss of exon 5
-tcttgcgtttctgtatattgtcttcatgtagttcacttgctgtgatataatcatatagcccttaagctctgatagttttttcttttcgtttgcctaccagGAGACAAGTTCTTCCAGCTGTTCCATACCTTTTACATACTGTGCAGGTGTTCTTTGCTCATAGTATATAATACTTACTACTTTCATCCATATGCATCCAG
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tcctcgtggtttattaatttatccactttcagtaaaatcaattgcctgtctcccttttgacataaagattgatttagttccacttttc-cttgcctatcagGAGGCAAGTTCTTCCAGCTGTTCCACACCTTTTAGAAACTGTACAG------------------------------------------------------
upper sequence: GRMZM2G461569_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 2
tcttgcgtttctgtatattgtcttcatgtagttcacttgc---tgtgatataatcatatagcccttaagctctgatagttttttcttttcgtttgcctaccagGAGACAAGTTCTTCCAGCTGTTCCATACCTTTTACATACTGTGCAGGTGTTCTTTGCTCATAGTATATAATACTTACTACTTTCATCCATATGCATCCAG
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---tctgttcagggttgttttctgcatttttttttctaacaaacagaaaaaaggaacagaattgctaacttacaaagtagaaattttatttcttggttaacagGAGACAAGTTCTTCCAGCTGTTCCACACCTCTTGCATACTGTACAG------------------------------------------------------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|211467326|gb|FK982254.1|FK982254EST: GACAAAACCGTGACAGACCTCATGGACCTGGGGAAACAACTATTGGGCAG GAGACAAGTTCTTCCAGCTGTTCCATACCTTTTACATACTGTGCAGGTGTT
genomic: GACAAAACCGTGACAGACCTCATGGACCTGGGGAAACAACTATTGGGCAGgtgggtttgc ... tgcctaccagGAGACAAGTTCTTCCAGCTGTTCCATACCTTTTACATACTGTGCAGGTGTT
EST:
gi|211090508|gb|FK961025.1|FK961025EST: GACAAAACCGTGACAGACCTCATGGACCTGGGGAAACAACTATTGGGCAG GAGACAAGTTCTTCCAGCTGTTCCATACCTTTTARCATACTGTGCAGGT
genomic: GACAAAACCGTGACAGACCTCATGGACCTGGGGAAACAACTATTGGGCAGgtgggtttgc ... tgcctaccagGAGACAAGTTCTTCCAGCTGTTCCATACCTTTTA-CATACTGTGCAGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tataatcatatagcccttaagctctgatagttttttcttttcgtttgcctaccagGAGACAAGTTCTTCCAGCTGTTCCATACCTTTTACATACTGTGCAGGTGTTCTTTGCTCATAGTATATAATACTTACTACTTTCATCCATATGCATCCAG
ctctgat putative branch site (score: 4)
ttttttcttttcgttt putative PPT
atagttttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttgcgtttctgtatattgtcttcatgtagttcacttgctgtgatataatcatatagcccttaagctctgatagttttttcttttcgtttgcctaccagGAGACAAGTTCTTCCAGCTGTTCCATACCTTTTACATACTGTGCAGGTGTTCTTTGCTCATAGTATATAATACTTACTACTTTCATCCATATGCATCCAG
- - - - - - - - - - -cttcatg
- - - - - - - - - - - - - - - - - -cttgctg