Sequence
atgc intronic sequence ATGC exonic sequencegtttgtgaaagtctatcttctatcctattttatcaattatcttttacattttgatctttacctgacaatgctggcacgcttcatgaatggccctagGTAGTTGAAGATGGTTATGAGTTTTTTGCACAACGAAGATTAGTGACAATCTTTTCAGCTCCAAATTACTGTGGAGAGTTCGATAACGCCGGTGCTCTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G137286_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G42050.1 (Glycine max), 3'ss of exon 2
gtttgtgaaagtctatcttctatccta---ttttatcaattatcttttaca-----ttttgatctttacctgacaatgctggcacgcttcatgaatggccctagGTAGTTGAAGATGGTTATGAGTTTTTTGCACAACGAAGATTAGTGACAATCTTTTCAGCTCCAAATTACTGTGGAGAGTTCGATAACGCCGGTGCTCTGT
|| | ||| ||| | | | |||||| ||| | || || | ||||| ||| | | || | || | | ||||| || || ||||| |||||||||||||| || |||||||||| || || ||||| ||||||||||| |||| || || || || || ||||| |||
-ttccttgctttcttactttaacctttgtcttttatgtgttacttcttccaacttcctctgatcaaggcctcattttactttcctattttttttttaa---tagGTTGTGGAGGATGGATATGAGTTTTTTGCTAAAAGAAGATTAGTCACGATATTTTCTGCTCCAAATTATGGTGGGGAATTTGACAATGCTGGTGCGTTGT
upper sequence: GRMZM2G137286_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA03G39440.1 (Glycine max), 3'ss of exon 2
gtttgtgaaagtctatcttctatcctattttatcaattatcttttacattttgat--------ctttacctgacaatgctggcac---gcttcatgaatggccc--tagGTAGTTGAAGATGGTTATGAGTTTTTTGCACAACGAAGATTAGTGACAATCTTTTCAGCTCCAAATTACTGTGGAGAGTTCGATAACGCCGGTGCTCTGT
| | || || | || |||| | || ||||||| | || | ||| ||| | | | || ||| | | | ||||| || || ||||| |||||||||||||| || |||||||||| || || ||||| |||||||||||| |||| || || || || || ||||| |||
---------atcttccctgcttttttactttaacctttgtcttttatgtgttacttattccaacttcctctggtcaaggtctcattttactttcctattttcttaatagGTTGTGGAGGATGGATATGAGTTTTTTGCTAAAAGAAGATTAGTCACGATATTTTCTGCTCCAAATTACGGTGGGGAATTTGACAATGCTGGTGCATTGT
upper sequence: GRMZM2G137286_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT3G05580.1 (Arabidopsis thaliana), 3'ss of exon 2
----------------------------------------------gtttgtgaaa--gtctatcttctatcctattttatcaattatcttttaca--------ttttgatctttacctgacaa--tgctggcacgcttcatgaatggccctagGTAGTTGAAGATGGTTATGAGTTTTTTGCACAACGAAGATTAGTGACAATCTTTTCAGCTCCAAATTACTGTGGAGAGTTCGATAACGCCGGTGCTCTGT
| ||| || || | | | | | ||| || | ||| || | ||| || |||| ||| | || | | || ||||||| |||||||| ||||||||||| ||| |||| || ||||| ||||| || ||||||||||| || | |||||||| || || |||||||| | |
gtaaatagacttccatagtgatcaaaactagaaccaaatggtccaactctgtagaaatgtttgacatttgttgtatcttgtgaatatgggcataaaggaaaagacttttatgagaaccttccaagatattgacttgtgagggacgtgtttgcagGTAGTGGAAGATGGGTATGAGTTTTTCGCAAAACGGAGGTTAGTCACAATATTCTCAGCTCCAAACTATGGAGGAGAGTTTGACAATGCCGGTGCATTAT
upper sequence: GRMZM2G137286_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT5G27840.2 (Arabidopsis thaliana), 3'ss of exon 2
-------------------------gtttgtgaaagtctatcttctatcctattttatcaattatcttttacattttgatctttac-----ctgacaatgctgg-cacgcttcatgaatg---gccctagGTAGTTGAAGATGGTTATGAGTTTTTTGCACAACGAAGATTAGTGACAATCTTTTCAGCTCCAAATTACTGTGGAGAGTTCGATAACGCCGGTGCTCTGT
||||||| | | | | | || | | || || | | | |||| || || || || || | | ||| | | ||||||| ||||| || ||||||||||| ||| |||| |||||||| || || || ||||||||||| || |||| ||||| || ||||| ||||| | |
gtaaaacaaacaagacctcctcgaaacctgtgaaattgttcttgatggtttgatt-agcgtttgtccataaagctagagactttttgaattcttaccatatcggacatgtgtaatggttttgtgatgcagGTAGTAGAAGACGGGTATGAGTTTTTCGCAAAACGGAGATTAGTCACGATATTCTCAGCTCCAAACTATGGTGGGGAGTTTGACAACGCTGGTGCGTTAT
upper sequence: GRMZM2G137286_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv14s0060g01750.t01 (Vitis vinifera), 3'ss of exon 2
gtttgtgaaagtctatcttctatcctattttatcaattatcttttacattttgatctttac--ctgacaatgctggca-----cgcttcatgaatggccctagGTAGTTGAAGATGGTTATGAGTTTTTTGCACAACGAAGATTAGTGACAATCTTTTCAGCTCCAAATTACTGTGGAGAGTTCGATAACGCCGGTGCTCTGT
| | || | | ||| || ||| | | | | | | | | | || | | | | | | | || | | | |||| || || ||||| ||||| || ||||| ||||| ||||||| ||||| |||||||| ||||| || |||||||||| ||||| ||||||||||| |
--tcataccag-ccagcttgagtcatatctagggactggtgtctgataacatcatactaaaaacaagtggtccagactaaaatcgttctaagctgaattgcagGTGGTGGAGGATGGATATGAATTCTTTGCTAAACGACGATTAGTCACAATTTTTTCAGCACCAAACTATGGTGGAGAGTTTGATAATGCCGGTGCTCTTTMapped 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|5928839|gb|AW056131.1|AW056131EST: TAGAGTTTTTGGAGAAGAACGATCTCGACCTTATATGCCGAGCTCATCAG GTAGTTGAAGATGGTTATGANNNNNNNGCACAACGAAGATTAGTGACAATC
genomic: TAGAGTTTTTGGAGAAGAACGATCTCGACCTTATATGCCGAGCTCATCAGgtttgtgaaa ... atggccctagGTAGTTGAAGATGGTTATGAGTTTTTTGCACAACGAAGATTAGTGACAATC
EST:
gi|38502590|gb|CF972450.1|CF972450EST: TAGAGTTTTTGGAGAAGAACGATCTCGACCTTATATGCCGAGCTCATCAG GTAGTTGAAGATGGTTATGAGTTTTTTGCACAACGAAGATTAGTGACAATC
genomic: TAGAGTTTTTGGAGAAGAACGATCTCGACCTTATATGCCGAGCTCATCAGgtttgtgaaa ... atggccctagGTAGTTGAAGATGGTTATGAGTTTTTTGCACAACGAAGATTAGTGACAATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttacattttgatctttacctgacaatgctggcacgcttcatgaatggccctagGTAGTTGAAGATGGTTATGAGTTTTTTGCACAACGAAGATTAGTGACAATCTTTTCAGCTCCAAATTACTGTGGAGAGTTCGATAACGCCGGTGCTCTGT
acctgac putative branch site (score: 3)
attttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtgaaagtctatcttctatcctattttatcaattatcttttacattttgatctttacctgacaatgctggcacgcttcatgaatggccctagGTAGTTGAAGATGGTTATGAGTTTTTTGCACAACGAAGATTAGTGACAATCTTTTCAGCTCCAAATTACTGTGGAGAGTTCGATAACGCCGGTGCTCTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA