Sequence
atgc intronic sequence ATGC exonic sequence...tgtttcctgaattggattacatcatctcttgatccacaattgggctttgctgtcaatagctggagtttcatctgtatttatgcattttttgatcgatcagGTTACTTTTGTTGAAGCTCTTGATCAATTAATGCCTGGGTTTGATCCCGAGATTGCAAAATTGGCGCAGAGGATTCTTATTAGTCCTCGTAAAATTGACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g23610.1 (Oryza sativa), 3'ss of exon 5
tgtttcctgaattggattacatcatctct--tgatccacaattgggctttgctgtcaatagctggagtttcatctgtatttatgcattttttgatcgatcagGTTACTTTTGTTGAAGCTCTTGATCAATTAATGCCTGGGTTTGATCCCGAGATTGCAAAATTGGCGCAGAGGATTCTTATTAGTCCTCGTAAAATTGACT
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--catgttaaattctaattaaccatctatgctgttttatgattaaggcctgttgtcatctgatgatatttcacctgtatttacctaaatttcacttggacagGTTACTTTTGTTGAAGCACTTGATCAGTTGATGCCTGGTTTTGATCCTGAGATTGCAAAATTGGCCCAAAGGATTCTTATCAATCCTCGTAAAATTGACT
upper sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv05s0077g01210.t01 (Vitis vinifera), 3'ss of exon 5
tgtttcctgaattggattacatcatctcttgatccacaattgggc--tttgctgtcaatagctggagtttcatctgtat----ttatgcattttttgatcgatcagGTTACTTTTGTTGAAGCTCTTGATCAATTAATGCCTGGGTTTGATCCCGAGATTGCAAAATTGGCGCAGAGGATTCTTATTAGTCCTCGTAAAATTGACT
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-----tagttattgtcatctttgttctcttttctcataatggaacaacttacacttag-aatttcattttaatgtaaatcaagttgaccataatgatattccacagGTAACTTTTATTGAAGCTCTTGATCAGCTTATGCCTGGATTTGATCCTGAGATTGGGAAGTTGGCCCAAAGAGTTCTAATAAATCCACGGAAAATTGACT
upper sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv14s0060g01330.t01 (Vitis vinifera), 3'ss of exon 5
-tgtttcctgaattggattacatcatc-tcttgatccacaattgggctttg---ctgtcaatagctggagtttcatctgtatttatgcattttttgatcgatcagGTTACTTTTGTTGAAGCTCTTGATCAATTAATGCCTGGGTTTGATCCCGAGATTGCAAAATTGGCGCAGAGGATTCTTATTAGTCCTCGTAAAATTGACT
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ctccacttttttttggttctcttaataatctatataactgattaaatacagaatttttttatagccgagtcaccaagctgaccacagcatt-----attgtgcagGTTACATTTGTTGAAGCTTTAGATCAGCTTATGCCTGGCTTTGATCCTGAGATTGGGAAATTGGCTCGGCGGGTTCTAATTAATCCTCGAAAAATTGATT
upper sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 4
lower sequence: EFJ06739 (Selaginella moellendorffii), 3'ss of exon 5
tgtttcctgaattggattacatcatctcttgatccacaattgggctttgctgtcaatagctggagtttcatctgtatttatgcattttttgatcgatcagGTTACTTTTGTTGAAGCTCTTGATCAATTAATGCCTGGGTTTGATCCCGAGATTGCAAAATTGGCGCAGAGGATTCTTATTAGTCCTCGTAAAATTGACT
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--------------------------------------------------gtttagtttttcttctttc--ctttttctatagaatacgcgat-gtgcagGTGACTTTTGTTGAAGCTCTGGATCAACTGATGCCAGGCTTTGATCCTGAAATCGGGAAGCTTGCTCAGAGGCTCCTGATCAACCCTCGAAAAATTGATTMapped 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|149070832|gb|EE159242.2|EE159242EST: GTTACATTGGACTTGAATTCAGTGATGTATACACAGCTCTAGGAAGTGAG GTTACTTTTGTTGAAGCTCTTGATCAATTAATGCCTGGGTTTGATCCCGAG
genomic: GTTACATTGGACTTGAATTCAGTGATGTATACACAGCTCTAGGAAGTGAGgtatatgaac ... gatcgatcagGTTACTTTTGTTGAAGCTCTTGATCAATTAATGCCTGGGTTTGATCCCGAG
EST:
gi|89249248|gb|DY621034.1|DY621034EST: GTTACATTGGACTTGAATTCAGTGATGTATACACAGCTCTAGGAAGTGAG GTTACTTTTGTTGAAGCTCTTGATCAATTAATGCCTGGGTTTGATCCCGAG
genomic: GTTACATTGGACTTGAATTCAGTGATGTATACACAGCTCTAGGAAGTGAGgtatatgaac ... gatcgatcagGTTACTTTTGTTGAAGCTCTTGATCAATTAATGCCTGGGTTTGATCCCGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgctgtcaatagctggagtttcatctgtatttatgcattttttgatcgatcagGTTACTTTTGTTGAAGCTCTTGATCAATTAATGCCTGGGTTTGATCCCGAGATTGCAAAATTGGCGCAGAGGATTCTTATTAGTCCTCGTAAAATTGACT
ttttgat putative branch site (score: 4)
ttttttg CT-rich tract
tatttatgcatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttcctgaattggattacatcatctcttgatccacaattgggctttgctgtcaatagctggagtttcatctgtatttatgcattttttgatcgatcagGTTACTTTTGTTGAAGCTCTTGATCAATTAATGCCTGGGTTTGATCCCGAGATTGCAAAATTGGCGCAGAGGATTCTTATTAGTCCTCGTAAAATTGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT