Sequence
atgc intronic sequence ATGC exonic sequencegtctccctcttcatggcctgtgtgctctctttcttaatccatccttgtaatcttagtccatctgaaatgtttttccccctgaagGTTGAAGGAGGTCCTGGTGGCGCAAATGATGTGGCAAACACAATAATGCAGAAATTCTGGGACTCTGCACTAGAGCCTCCAGATGAGGATTTTGATAGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os11g06930.1 (Oryza sativa), 3'ss of exon 9
gtctccctcttcatg---gcctgtgtgctctc--tttcttaatccatccttgtaatcttagtccatctgaaatgtttttccccctgaagGTTGAAGGAGGTCCTGGTGGCGCAAATGATGTGGCAAACACAATAATGCAGAAATTCTGGGACTC------TGCACTAGAGCCTCCAGATGAGGATTTTGATAGTC
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gtctctctgcacatgcgtattttttcgcttctcattccttgctttttccttatggtttccgttcatct--aacatcattctgtgtgaagGTTGAAGGAGGTCCTGAGACCACGAATGGTGTGGCAAACACAATAATGCAAAAGTTTTGGGACTCAGCTCTTGCTTTGGAGCCCCCAGATGAGGAATTTG------
upper sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 9
-------gtctccctcttcatggcctgtgtgctctctttcttaatccatccttgtaatctta-----gtccatctgaaatgttt----ttccccctgaagGTTGAAGGAGGTCCTGGTGGCGCAAATGATGTGGCAAACACAATAATGCAGAAATTCTGGGACTCTGCACTAGAGCCT---CCAGATGAGGATTTTGATAGTC
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gtctatcaccttgtgtagtaaggatcatgtacttctttgtatcaacagttgatagtgttgtacggataccaatttctgattactaaaacgtgctttgtagGTTGAGAGTAGCTCTGGAGCTGTTAATGATGTGGCAAATACAATTATGCAAAAATTTTGGGACTCAGCTTTTAATCTAGAACCACCGGAAGATTCTGATA---
upper sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA05G32930.1 (Glycine max), 3'ss of exon 9
----------gtctccctcttcatggcctgtgtgctctctttcttaatccatccttgtaatcttagt-cca---tctga--aatgtttttccccctgaagGTTGAAGGAGGTCCTGGTGGCGCAAATGATGTGGCAAACACAATAATGCAGAAATTCTGGGACTCTGCACTAGAGCCT---CCAGATGAGGATTTTGATAGTC
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gcagtctattatcttgtctagtaaggatcatgtactttgtatcaacagatgatagtgttgtacggataccaatttctgattactaaaatgtgctttgtagGTTGAGAGTAGCTCTGGAGCTGTTAATGATGTGGCAAATACAATTATGCAAAAATTTTGGGACTCAGCTTTTAATCTAGAACCACCGGAAGATTCTGATA---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|76290187|gb|DV029755.1|DV029755EST: TTGCTGCTTGCTTGGACGTTCTGCAACTTACCCATGCTGCCATTTCAATG GTTGAAGGAGGTCCTGGTGGGCGCAA-TGATGTGGCAAACACAATAATGCA
genomic: TTGCTGCTTGCTTGGACGTTCTGCAACTTACCCATGCTGCCATTTCAATGgtctccctct ... ccccctgaagGTTGAAGGAGGTCCTGGTGG-CGCAAATGATGTGGCAAACACAATAATGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcttaatccatccttgtaatcttagtccatctgaaatgtttttccccctgaagGTTGAAGGAGGTCCTGGTGGCGCAAATGATGTGGCAAACACAATAATGCAGAAATTCTGGGACTCTGCACTAGAGCCTCCAGATGAGGATTTTGATAGTC
tcttaat putative branch site (score: 3)
tgtttttccccct putative PPT
aaatgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctccctcttcatggcctgtgtgctctctttcttaatccatccttgtaatcttagtccatctgaaatgtttttccccctgaagGTTGAAGGAGGTCCTGGTGGCGCAAATGATGTGGCAAACACAATAATGCAGAAATTCTGGGACTCTGCACTAGAGCCTCCAGATGAGGATTTTGATAGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT