Sequence
atgc intronic sequence ATGC exonic sequence...gcgtatactacttgttcaattgcaaaaaaaaatcacagctaaagttttcagtgccatcatattaaactttcagtattaacaccaactttcttctcgacagGTGGTCAAACAAGCATCAGGTACCGGCTCTTTATCATGATAGTAAATTCCTGACTGTCATTTCTGAAGTAAATAATACTATTGCATTTATTTAATCACCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G147726_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g15040.2 (Oryza sativa), 3'ss of exon 3
gcgtatactacttgttcaattgcaaaaaaaaatca--cagctaaagttttca-gtgccatcatattaaactttcag------tattaacaccaactttcttctcgacagGTGGTCAAACAAGCATCAGGTACCGGCTCTTTATCATGATAGTAAATTCCTGACTGTCATTTCTGAAGTAAATAATACTATTGCATTTATTTAATCACCG
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-------ctgctt-ctctatgctagtgaaactttgtttgcctaatatttttatgttccttcactttaaaatatccaatttttttttaacacca-ctttcttctcaacagGTGGTCAAACAAGCATCAG---------------------------------------------------------------------------------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|211068726|gb|FL060703.1|FL060703EST: CGTTGAGACGGTGCAGTACAACAACATCAAGTTCCAAGTATGGGATCTTG GTGGTCAAACAAGCATCAGGTACCGGCTCTTTATCATGATAGTAAATTCCT
genomic: CGTTGAGACGGTGCAGTACAACAACATCAAGTTCCAAGTATGGGATCTTGgtgagttact ... ttctcgacagGTGGTCAAACAAGCATCAGGTACCGGCTCTTTATCATGATAGTAAATTCCT
EST:
gi|211068734|gb|FL060711.1|FL060711EST: CGTTGAGACGGTGCAGTACAACCACATCAAGTTCCAAGTATGGGATCTTG GTGGTCAAACNAGCATCAGGTACCGGGCTCTT-ATCATGATAGTAAATTCC
genomic: CGTTGAGACGGTGCAGTACAACAACATCAAGTTCCAAGTATGGGATCTTGgtgagttact ... ttctcgacagGTGGTCAAACAAGCATCAGGTACCGG-CTCTTTATCATGATAGTAAATTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcagtgccatcatattaaactttcagtattaacaccaactttcttctcgacagGTGGTCAAACAAGCATCAGGTACCGGCTCTTTATCATGATAGTAAATTCCTGACTGTCATTTCTGAAGTAAATAATACTATTGCATTTATTTAATCACCG
tattaac putative branch site (score: 1)
ccaactttcttctc CT-rich tract
atattaaactttcagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcgtatactacttgttcaattgcaaaaaaaaatcacagctaaagttttcagtgccatcatattaaactttcagtattaacaccaactttcttctcgacagGTGGTCAAACAAGCATCAGGTACCGGCTCTTTATCATGATAGTAAATTCCTGACTGTCATTTCTGAAGTAAATAATACTATTGCATTTATTTAATCACCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG