Sequence
atgc intronic sequence ATGC exonic sequencegttactatcttgtgctcttccatggaattttttatattcaactttgaaattatttacatgccaatacttaatctttgataatttctaatgcagACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAACCTACTGTCATAACATAGGCCCTGTTTGTTTCGGCTTTTGGCAGCTTCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G025854_T02 (Zea mays), 3'ss of exon 21
lower sequence: LOC_Os10g11140.1 (Oryza sativa), 3'ss of exon 21
gttactatcttgtgctcttccatggaattttt-tatattcaactt-tgaaattatttacatgccaatacttaatctttgataatttctaat----gcagACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAACCTACTGTCATAACATAGGCC--CTGTTTGTTTCGGC--TTTTGGCAGCTTCTG
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gtaactatcatctgccctcagatgagctttctatgcatccatttcctgaaattatgtgtatatataaact-actcataaactattttaaatttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGCCTACTGTCATAACATAAACATACCGGTGACATTAGCAATGTTACCACCT----
upper sequence: GRMZM2G025854_T02 (Zea mays), 3'ss of exon 21
lower sequence: AT5G51820.1 (Arabidopsis thaliana), 3'ss of exon 21
gttactatcttgtgctcttccatg-gaattttttatattcaactttgaaattatttacatgccaatacttaatctttgataatttctaatgcagACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAACCTACTGTCATAACAT-AGGCCCTGTTTGTTTCGG--CTTTTGGCAGCTTCTG
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gttcgttcttggttttgtttcgggagagttaaagatgtcccagttttgactt-------tagtaatgattcatctc--attgtca-tgctacagATCTTGCATTGTCTGTATCAAAGCTGAAGGACTTCACAGGGAGGGAGAAGCCCACTGTCATTACATGAAGAGAAGTGTCACATGGTCCTTTCGATAAGGC---
upper sequence: GRMZM2G025854_T02 (Zea mays), 3'ss of exon 21
lower sequence: Vv16s0022g02320.t01 (Vitis vinifera), 3'ss of exon 21
gttactatcttgtgctcttccatggaattttttatattcaactttgaaattatttacatgccaatacttaatctttgataatttctaatgcagACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAACCTACTGTCATAACATAGGCCCTGTTTGTTTCGGCTTTTGGCAGCTTCTG
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-----------------gttagttcaatgtcgtttccacaagat-aaactaactcgtatcaaggtattgattacttatttgctcatgttttagATTTGGCGTTATCTTTGTCGAAGCTCAAGGACTTCACAGGAAGGGAGAAACCTACAGTGATCACATAAGGCACATTCCCAGTCAATTTCATTGTCCAATGMapped 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|211515424|gb|FL132964.1|FL132964EST: TATCTCGAAGCATAGTCTCGATGCTCAAACAGCTTTGAAGCCTTTAATAG ACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAAC
genomic: TATCTCGAAGCATAGTCTCGATGCTCAAACAGCTTTGAAGCCTTTAATAGgttactatct ... tctaatgcagACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAAC
EST:
gi|89249196|gb|DY620982.1|DY620982EST: TATCTCGAAGCATAGTCTCGATGCTCAAACAGCTTTGAAGCCTTTAATAG ACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAAC
genomic: TATCTCGAAGCATAGTCTCGATGCTCAAACAGCTTTGAAGCCTTTAATAGgttactatct ... tctaatgcagACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caactttgaaattatttacatgccaatacttaatctttgataatttctaatgcagACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAACCTACTGTCATAACATAGGCCCTGTTTGTTTCGGCTTTTGGCAGCTTCTG
ttctaat putative branch site (score: 2)
tttct CT-rich tract
aatacttaatctttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttactatcttgtgctcttccatggaattttttatattcaactttgaaattatttacatgccaatacttaatctttgataatttctaatgcagACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAACCTACTGTCATAACATAGGCCCTGTTTGTTTCGGCTTTTGGCAGCTTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT