Sequence
atgc intronic sequence ATGC exonic sequence...cattaaccaattcagaaggaactcttgcttatcggtacaagccaagaccagcttgcagcatctgtgtgcctccaagtaacatgcgattgcttgcatgcagGTACCTTGTCCCCGCCGACCTCACAGTGGGACAGTTTGTGTACGTGGTGCGGAAGCGCATCAAGCTCAGCGCCGAGAAGGCGATCTTCATCTTCGTGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G014975_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g09240.1 (Oryza sativa), 3'ss of exon 4
---------cattaaccaattcagaaggaactcttgcttatcggtacaa-gccaagaccagcttgcagcatctgtgtgcctccaagtaacatgcgattgcttgcatgcagGTACCTTGTCCCCGCCGACCTCACAGTGGGACAGTTTGTGTACGTGGTGCGGAAGCGCATCAAGCTCAGCGCCGAGAAGGCGATCTTCATCTTCGTGAAG
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ttttagtcctgtctatcatacttgat--aactcttgcatcctgtaatggcagcaaaaccactgttgacca-------accaccatatgttctttt-ttatctatatgcagGTACCTTGTTCCCGCTGACCTCACGGTTGGACAGTTTGTGTATGTTGTTCGGAAGCGGATCAAGCTCAGTGCTGAGAAGGCAATCTTCATCTTCGTCAAG
upper sequence: GRMZM2G014975_T01 (Zea mays), 3'ss of exon 2
lower sequence: EDO98830 (Chlamydomonas reinhardtii), 3'ss of exon 3
cattaaccaattcagaaggaactcttgcttatcggtacaagccaagaccagcttgcagcatctgtgtgcctccaagtaacatgcgattgcttgca------tgcagGTACCTTGTCCCCGCCGACCTCACAGTGGGACAGTTTGTGTACGTGGTGCGGAAGCGCATCAAGCTCAGCGCCGAGAAGGCGATCTTCATCTTCGTGAAG
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-----gccgtgcctctaggactgccagcctgcgtgtggtaac-gtgccctgtgtgtcgtcagcctaaccccgtaaacctcttggcgtggcctcccggccgctgcagGTACCTGGTGCCTTCAGACCTGACCGTCGGGCAATTTGTGTACGTCATCCGCAAGCGGATAAAGCTGAGCCCCGAGAAGGCCATCTTCATTTTCGTGAAG
upper sequence: GRMZM2G014975_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S209_114V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------------------------------------cattaaccaattcagaaggaactcttgcttatcggtacaagccaagaccagcttgcagcatctgtgtgcctccaagtaacatgcgattgcttgcatgcagGTACCTTGTCCCCGCCGACCTCACAGTGGGACAGTTTGTGTACGTGGTGCGGAAGCGCATCAAGCTCAGCGCCGAGAAGGCGATCTTCATCTTCGTGAAG
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gtaggtctttgtcatgacttgtttttgtttcgaagttttccacctcttggtttggattggtattggcgtggtccctgaccatgaaaccttgggtttgtggaattagggtcctgtcctggctcaaattgacaaaaggc-atatttgtgcagGTATCTTGTACCAGCTGATTTAACAGTCGGACAGTTTGTATACGTCATAAGGAAGCGCATTAAGTTGAGTTCCGAGAAGGCCATCTTCATCTTTGTGAAG
upper sequence: GRMZM2G014975_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S209_115V6.2 (Physcomitrella patens), 3'ss of exon 3
-----------------------------------------------------------------------------cattaaccaattcagaaggaactcttgcttatcggtacaagccaagaccagct-tgcagcatctgtgtgcctccaagtaacatgcgattgcttgcatgcagGTACCTTGTCCCCGCCGACCTCACAGTGGGACAGTTTGTGTACGTGGTGCGGAAGCGCATCAAGCTCAGCGCCGAGAAGGCGATCTTCATCTTCGTGAAG
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gtgggtccccgtcgctttttgcgtttcgagattgagaggctgttggtggtgtcgtcgagtattaggtttgggatgcgttgtgatcacgtgtttggtcactaatccatgtccctgcaacagaagcatggctgtgtagagtgcggatacgga-gagtaacgtggaaagg--tgtgcgcagGTATCTGGTACCAGCGGACTTGACGGTTGGACAGTTTGTGTACGTGATAAGGAAGCGCATCAAGTTGAGTTCGGAGAAGGCCATCTTCATATTCGTGAAGMapped 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|211478882|gb|FL381849.1|FL381849EST: ATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATCGACAAGAAAAA GTACCTTGTCCCCGCCGACCTCACAGTGGGACAGTTTGTGTACGTGGTGCG
genomic: ATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATCGACAAGAAAAAgtcagttccg ... ttgcatgcagGTACCTTGTCCCCGCCGACCTCACAGTGGGACAGTTTGTGTACGTGGTGCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaccagcttgcagcatctgtgtgcctccaagtaacatgcgattgcttgcatgcagGTACCTTGTCCCCGCCGACCTCACAGTGGGACAGTTTGTGTACGTGGTGCGGAAGCGCATCAAGCTCAGCGCCGAGAAGGCGATCTTCATCTTCGTGAAG
aagtaac putative branch site (score: 2)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattaaccaattcagaaggaactcttgcttatcggtacaagccaagaccagcttgcagcatctgtgtgcctccaagtaacatgcgattgcttgcatgcagGTACCTTGTCCCCGCCGACCTCACAGTGGGACAGTTTGTGTACGTGGTGCGGAAGCGCATCAAGCTCAGCGCCGAGAAGGCGATCTTCATCTTCGTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA