Sequence
atgc intronic sequence ATGC exonic sequencegtaatattatccacacttgtgcttttctgtggtatttttagccttttcattttttacagtttttttgcctttgaattgtagAGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGACCTTGATGCTGCTCTTGCTCCTGTAGCCAAATCTGTGGATGCAAAAGAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G167999_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os12g06810.2 (Oryza sativa), 3'ss of exon 5
gtaatattatccacacttgtgcttttctgtggtatt------tttagccttttcattttttacagttttttt--gcctttgaattgtagAGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGACCTTGATGCTGCTCTTGCTCCTGTAGCCAAATCTGTGGATGCAAAAGAGG
||| ||||||||| | ||||||||||||| | | |||| || ||| |||| | ||||||| || || | |||||||||||||||| ||||||||||| ||||| |||||||| || || |||||||||||| || ||||||||||||| ||||||||||| |||||||||||||
gta-tattatccagcactatgcttttctgtggaactactcattttatcccttttgttttacatgtttttttttattctctgcaatgtagAGCAATATTGTTGCCTCTGGTGGCCTTGGCGGTGAGGTCTTTATATGGGACCTTGATTCTTCTCTTGCTCCTGTGGCCAAATCTGTAGATGCAAAAGAGG
upper sequence: GRMZM2G167999_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 5
------------------------------------------------------------------gtaatattatccacact--------tgtgcttttctgtggtatttttagccttttca-------ttttttacagtttttttgcctt-tgaattgtagAGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGACCTTGATGCTGCTCTTGCTCCTGTAGCCAAATCTGTGGATGCAAAAGAGG
| ||| |||||| | | || || | ||| | || | ||| | ||| | |||| | | | || ||| |||||||||||||| ||||||||||| ||||| || |||||||| || ||||| | || ||||| | |||| || | || | ||||| | | |
gtaatgtacttcaaacatcttatgcttcttattaagtgtgtcaagaaaaaagttcattttattgtttttatacgttccacattgagtcagatagaaactttggttgaattatcagtatcgtcaaatccattatttgatcgtttaatagtgtcatgcattttagAGCAATATTGTTGCCTCTGGTGGCCTTGGCGGGGAGGTTTTTATATGGGATATCGAGGCTGCCATCACTCCGGTTTCTAAGTGCAATGATGCTACAATTG
upper sequence: GRMZM2G167999_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA03G40440.4 (Glycine max), 3'ss of exon 5
---------------------------------------------------------------------------------gtaatattatccacacttgtgctttt-ctgtggtatttttagccttttcattttttacagtttttttgcc--tttgaattgtagAGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGACCTTGATGCTGCTCTTGCTCCTGTAGCCAAATCTGTGGATGCAAAAGAGG
| |||| || | | |||| || ||| | | | |||| ||| ||| | ||| || |||| ||||||||| ||||||||||| |||||||| |||||||| || ||||| | || ||||| || ||||| || | || | | |||| | || |
gtaatgtacttcaaagttcaaacatgttatgcttcttattatgtgccttaagaaaaagttcattttattgtttctatatgctccacattaaacagatagctactttggttgaattatcaatgtcaaatccattctttgatcctttaatagtgtcttgctttttagAACAATATTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTATATGGGATATCGAGGCTGCCCTCGCTCCAGTCTCTAAGTGTAATGATGATACAGTTG
upper sequence: GRMZM2G167999_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 5
-----------------------------------------------------------------gtaatattatccacacttgtgct--------tttctgtggtatttttagcctt---ttcattttttacagtttttttgcc--tttgaattgtagAGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGACCTTGATGCTGCTCTTGCTCCTGTAGCCAAATCTGTGGATGCAAAAGAGG---
|||| |||||| | | || || | ||| | | | | |||| ||| ||| | ||| || |||| ||||| ||| ||||||||||| |||||||| |||||||| || ||||| | || ||||| |||||||| | || | | ||||| | | |
gtaatgtactccaaacatcttatgcttcttattaagtgtatcgagaaaaagttcattttattgtttctatatgctccacattgaaacagatagctactttggttgaattatcaatttcaaatccattctttgatcctttaatagtgtcttgctttttagAACAATACTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTATATGGGATATCGAGGCTGCCCTTGCTCCCT---CTAAGTGTAATGATGCTATGGTTGATG
upper sequence: GRMZM2G167999_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 5
---------------------------------------------------------------------------------gtaatattatccacacttgtgcttttctgt-ggtatttttagcctt-ttcatttttt-acagtttttttgcctt-tgaattgtagAGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGACCTTGATGCTGCTCTTGCTCCTGTAGCCAAATCTGTGGATGCAAAAGAGG
| | || | |||| | | | | |||| | | | |||| ||| | |||| | | | || ||| |||||||||||||| ||||||||||| ||||| || |||||||| || ||||| | || ||||| || |||| || | || | ||||| | || |
gtaatgtacttcaatcatcttatgcttcttattaagtgcatcaagaaaaagttcattttattgtttttatacgttccacattgagtcagatagatactttggttgaattatcagtatcaactgtcaaatccattatttgatcgtttaatagtgtcatgcattttagAGCAATATTGTTGCCTCTGGTGGCCTTGGCGGGGAGGTTTTTATATGGGATATCGAGGCTGCCCTCACTCCAGTCTCTAAGTGCAATGATGCTACAGTTG
upper sequence: GRMZM2G167999_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 5
--------------------------------------------------------------------------------------------gtaatattatccacacttgtgcttttctgtggtatttttagccttt-tcattttttacagtttttttgcctt--tgaattgtagAGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGACCTTGATGCTGCTCTTGCTCCTGTAGCCAAATCTGTGGATGCAAAAGAGG
| || | || | ||| | | |||| || ||| | | || ||||||| | |||| | | || ||| ||||||||| |||| ||||||||||| |||||||| |||||||| | ||||| || || ||||| || |||| || | || || ||||||| ||||
gtaatttctttgtcaaaattttcatggaattatttactgcatagatgaagggttcttgtcagtgtaatgctgttatttaagtttcatgttcaatttaatggtgcatatttgggggcat-tgtgtcatattttgtcgttatcattttctgatccttttatagtgtcatgcattttagAGCAATGTTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTGTATGGGATCTGGAAGCTGCACTAACTCCAGTCTCAAAGTCAAGTGATGCAATGGAGGMapped 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|18385199|gb|BM418398.1|BM418398EST: TCCGCCGGCATTCTGATTACGTGATTTGTCTTGCTGCTGCTGAGAATAAT AGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGAC
genomic: TCCGCCGGCATTCTGATTACGTGATTTGTCTTGCTGCTGCTGAGAATAATgtaatattat ... tgaattgtagAGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGAC
EST:
gi|60397544|gb|DN230360.1|DN230360EST: TCCGCCGGCATTCTGATTACGTGATTTGTCTTGCTGCTGCTGAGAATAAT AGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGAC
genomic: TCCGCCGGCATTCTGATTACGTGATTTGTCTTGCTGCTGCTGAGAATAATgtaatattat ... tgaattgtagAGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtggtatttttagccttttcattttttacagtttttttgcctttgaattgtagAGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGACCTTGATGCTGCTCTTGCTCCTGTAGCCAAATCTGTGGATGCAAAAGAGG
tttttttgccttt CT-rich tract
ttttcattttttacag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatattatccacacttgtgcttttctgtggtatttttagccttttcattttttacagtttttttgcctttgaattgtagAGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGACCTTGATGCTGCTCTTGCTCCTGTAGCCAAATCTGTGGATGCAAAAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG