Sequence
atgc intronic sequence ATGC exonic sequencegtaacaacctcttgacttaaatcgctcagattgctctattgctattcaatttgctactccatatcctgatcacaatccactcaaaaatccattgtagATGGGAGTGAAATGGATCTTTCTACTATCACTAGCGCTTCTCCAAGCTGCCTACTACCGCCGCATGAGGTGGTCAGTCTTGAAGTCCCGAAAGCTGGTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os05g23620.1 (Oryza sativa), 3'ss of exon 8
gtaacaacctcttgacttaaatcgctcagattgctctattgctattcaatttgctactccatatcctgatcacaatccactcaaaaatccattgtagATGGGAGTGAAATGGATCTTTCTACTATCACTAGCGCTTCTCCAAGCTGCCTACTACCGCCGCATGAGGTGGTCAGTCTTGAAGTCCCGAAAGCTGGTCC
|||| | ||| |||| | | || || | |||| || ||||||| || | || |||| || ||| | |||| || | ||||||||||||||||||||||||| ||||| ||||| || ||||||||||| || |||||||| |||||||||||||| ||| ||||||| || ||||||||||
gtaatcagctc--aactt---ttgtcca--tttatatattact-ttcaattcgcaat---atttcctaataccaacctactctaa--tttgatgtagATGGGAGTGAAATGGATCTTCCTACTGTCACTTGCACTTCTCCAAGCCGCATACTACCGTCGCATGAGGTGGTCCGTCCTGAAGTCACGCAAGCTGGTCC
upper sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA19G24620.2 (Glycine max), 3'ss of exon 7
gtaacaacctcttgacttaaatcgctcagattgctctattgctattcaatttgc-tactccatatcctgatcacaatccactcaaaaatccattgtagATGGGAGTGAAATGGATCTTTCTACTATCACTAGCGCTTCTCCAAGCTGCCTACTACCGCCGCATGAGGTGGTCAGTCTTGAAGTCCCGAAAGCTGGTCC
| || | ||| || || | ||| ||||| || || | | || | ||| | | || | |||||||| | |||||||| ||| |||| ||||| || || || || |||||||| ||||||||| ||||||||||||| | ||||| || |||||||| |
----------gtccgtttcctttgctatcatgtttccac--ctaatcaataaaaatattctgttttctaactacactttttatgcatat-----gcagATGGGATTTAAATGGATATTTGTACTGTCACTGGCACTACTTCAGGCTGCCTATTACCGCCGCTTGAGGTGGTCAGTTCTAAAGTCTCGCAAGCTGGTTC
upper sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA16G06700.2 (Glycine max), 3'ss of exon 7
gtaacaacctcttgacttaaatcgctcagattgctctattgctattcaatttgctactccatatcctgatcacaatccactcaaaa-atccat-tgtagATGGGAGTGAAATGGATCTTTCTACTATCACTAGCGCTTCTCCAAGCTGCCTACTACCGCCGCATGAGGTGGTCAGTCTTGAAGTCCCGAAAGCTGGTCC
|| || ||| ||| || || | | || || ||||||||| | | | | || | || ||| || |||||||| | |||||||| ||| |||| ||| | || || || || |||||||| ||||||||| ||||||||||||| | ||||| || |||||||| |
------gtctgttt-cttttgctgctatcatgtttccaata--gatcgataaagacacgcatatcctgttttctaactacacttgttatgcatatgcagATGGGATTTAAATGGATATTTGTACTGTCATTGGCACTACTTCAGGCTGCCTATTACCGCCGCTTGAGGTGGTCAGTTCTAAAGTCTCGCAAGCTGGTTCMapped 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|166544398|gb|EG296822.1|EG296822EST: TATCATTCCTTTCGTGGGCAGCTGAGCCTGAGATGGAAGAGAGAAAGCTG ATGGGAGTGAAATGGATCTTTCTACTATCACTAGCG
genomic: TATCATTCCTTTCGTGGGCAGCTGAGCCTGAGATGGAAGAGAGAAAGCTGgtaacaacct ... tccattgtagATGGGAGTGAAATGGATCTTTCTACTATCACTAGCG
EST:
gi|60400366|gb|DN233173.1|DN233173EST: TATCATTCCTTTCGTGGGCAGCTGAGCCTGAGATGGAAGAGAGAAAGCTG ATGGGAGTGAAATGGATCTTTCTACTATCACTAGCGCTTCTCCAAGCTGCC
genomic: TATCATTCCTTTCGTGGGCAGCTGAGCCTGAGATGGAAGAGAGAAAGCTGgtaacaacct ... tccattgtagATGGGAGTGAAATGGATCTTTCTACTATCACTAGCGCTTCTCCAAGCTGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattcaatttgctactccatatcctgatcacaatccactcaaaaatccattgtagATGGGAGTGAAATGGATCTTTCTACTATCACTAGCGCTTCTCCAAGCTGCCTACTACCGCCGCATGAGGTGGTCAGTCTTGAAGTCCCGAAAGCTGGTCC
tcctgat putative branch site (score: 3)
tcaaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacaacctcttgacttaaatcgctcagattgctctattgctattcaatttgctactccatatcctgatcacaatccactcaaaaatccattgtagATGGGAGTGAAATGGATCTTTCTACTATCACTAGCGCTTCTCCAAGCTGCCTACTACCGCCGCATGAGGTGGTCAGTCTTGAAGTCCCGAAAGCTGGTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG