Sequence
atgc intronic sequence ATGC exonic sequencegtaaatccttccatcagtgtcatttttctttgcaagttcatacctgttgaacctgtagccactaaatcagatatttgttatccagAATTTTAATAATATAACCACCGATGTGATATGCCATGGAGAAAAGAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G447433_T08 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g27030.2 (Oryza sativa), 3'ss of exon 4
------------gtaaatccttccatcagtgtcatttttctttg-caagttcatacctgttgaacctgtagccactaaatcag-atatttgttatc-cagAATTTTAATAATATAACCACCGATGTGATATGCCATGGAGAAAAGAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCAT
| || | || | ||| | | |||| | | || | | | | | ||| | || |||||| | ||||||| |||||| | || ||||| |||||||||||||||| |||||||||||||||||| | ||||| |||||||||||||||||||||
aaagaattattttttgtgccatagattaagcaaattgtacagaaacaaggtaaacatcctttaccttattaaaagtaatcaattatttttgtttttgtagAATTTCAATAATGTCACTGGTGATGTCATATGCCATGGAGAAAGGAGTGTCATCAAGGAAGGCTACAAGAGCTTCCCAAGTGGGCATTCTTCAG
upper sequence: GRMZM2G447433_T08 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g27040.1 (Oryza sativa), 3'ss of exon 5
gtaaa-tccttccatcagtgtcatttttc----tttgcaagttcatacctgttg-aacctgtagccactaaatcagatattt-gttatccagAATTTTAATAATATAACCACCGATGTGATATGCCATGGAGAAAAGAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCAT
|||| ||||| |||||| | | | | || ||||| || | | || | || | ||| || | ||||| ||| ||||| | || || |||| ||||||||||||||||||||||| ||||||||||| || ||||| || |||||||||||||||||||
gtaatctccttgtgctagtgtcctgatctcagatattaaacttcatgtagtctgcaggttatattgaagtaacaaatcgtttcatttttcagAAGTTTGATAATGTCACTACAAATGTCATATGCCATGGAGAAAAGAGTGTTATCAAGGAAGGCCACAAGAGCTTTCCAAGTGGGCATTCTTCAT
upper sequence: GRMZM2G447433_T08 (Zea mays), 3'ss of exon 6
lower sequence: Vv01s0011g04180.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------gtaaatccttccatcagtgtc-atttttctttgcaagttcatacctgttgaa-cctgtagccactaaatcagatatttg---------ttatccagAATTTTAATAATATAACCACCGATGTGATATGCCATGGAGAAAAGAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCAT
| | | ||| | ||| | || | ||| || | | || | | ||| || || || || ||||||| |||| ||| ||| | | || ||| || ||||| | || |||||| || ||||||||||||||||| ||||| |||||||| ||||||||| |||| |
gtgggctctccattacatcaactatctttatttttgttcccaagattgttgacttctgtttatttttttgttcttgatcagtcctatactcagccaa-catatatttggtgcatggattattcagGTGTTTGACACTAGAACAACAGATGTTCTGTGTACTGGAGACAAAAGTGTCATCAAGGAAGGACATAAAAGTTTCCCTAGTGGGCATACTTCTTMapped 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|211272973|gb|FL366561.1|FL366561EST: GTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGATGGCAAACCT AATTTTAATAATATAACCACCGATGTGATATGCCATGGAGAAAAGAGTGTC
genomic: GTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGATGGCAAACCTgtaaatcctt ... tgttatccagAATTTTAATAATATAACCACCGATGTGATATGCCATGGAGAAAAGAGTGTC
EST:
gi|10697618|gb|BE997342.1|BE997342EST: GTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGATGGCAAACCT AATTTTAATAATATAACCACCGATGTGATATGCCATGGAGAAAAGAGTGTC
genomic: GTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGATGGCAAACCTgtaaatcctt ... tgttatccagAATTTTAATAATATAACCACCGATGTGATATGCCATGGAGAAAAGAGTGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcaagttcatacctgttgaacctgtagccactaaatcagatatttgttatccagAATTTTAATAATATAACCACCGATGTGATATGCCATGGAGAAAAGAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCAT
cactaaa putative branch site (score: 2)
taaatcagatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatccttccatcagtgtcatttttctttgcaagttcatacctgttgaacctgtagccactaaatcagatatttgttatccagAATTTTAATAATATAACCACCGATGTGATATGCCATGGAGAAAAGAGTGTCATCAAGGAAGGTCATAAGAGTTTCCCAAGTGGGCATTCTTCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA