Sequence
atgc intronic sequence ATGC exonic sequenceTGTTGTTGGCATGAAATGCAAGGCTGAGAAGGTAGATGGTGGTTATATACTAAATGGCAACAAGATGTGGTGCACTAATGGTCCATCTGCTGAAACACTGgtaatatagtttagctcatatgttaacttctgaaactgattttctataattttaacagttttctaccatttgttgtttttttggtttgatcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G45300.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G45300.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os05g03480.2 (Oryza sativa), 5'ss of exon 6
TGTTGTTGGCATGAAATGCAAGGCTGAGAAGGTAGATGGTGGTTATATACTAAATGGCAACAAGATGTGGTGCACTAATGGTCCATCTGCTGAAACACTGgtaatatagtttag----ctcatatgttaacttctgaaactgattttctataattttaacagttttctaccatttgtt-------gtttttttggtttgatcag
|||||| | ||||| ||||| |||||||| ||||||||||||||| | | || || || |||||||||||||| || || ||||||||| | ||||||||||| | || | || || ||| | | || | || | || || | ||| | |||| | | |||||| | ||| |
TGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTGGTTATGTCATTAACGGGAATAAGATGTGGTGCACCAACGGGCCATCTGCTCAGACACTGgtaatgctctcaagtccttttgtagattcactccctcatgatatctcctttcatgttc-cgttttccagtcattagctctgctgggtttttgtctcttggt---
upper sequence: AT3G45300.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G381051_T03 (Zea mays), 5'ss of exon 6
TGTTGTTGGCATGAAATGCAAGGCTGAGAAGGTAGATGGTGGTTATATACTAAATGGCAACAAGATGTGGTGCACTAATGGTCCATCTGCTGAAACACTGgtaatatagtttagctcatatgttaacttctgaaactgattttctataattttaacagttttctaccatttgttgtttttttggtttgatcag
||| || ||||||| ||||| |||||||| || || ||||| ||| | || ||||| || |||||||||||||| ||||| || |||||| | ||||||||| | | | | || | || | | | | || |||| | | | | | ||| ||| | | || | ||| | |||
TGTCGTCAGCATGAAGTGCAAAGCTGAGAAAGTGGACGGTGGCTATGTCCTTAATGGGAATAAGATGTGGTGCACCAATGGCCCGTCTGCTCAGACACTGgtatttttgctcttcttacat-tcattcccctatgct----ttctgcactcctgttatcctgcta--attcatccatgttgggatttta-cag
upper sequence: AT3G45300.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA11G15900.1 (Glycine max), 5'ss of exon 7
TGTTGTTGGCATGAAATGCAAGGCTGAGAAGGTAGATGGTGGTTATATACTAAATGGCAACAAGATGTGGTGCACTAATGGTCCATCTGCTGAAACACTGgtaatatagtttagctcatat---gttaact---tctgaaactgattttctataattttaacagttttctaccatttgttgtttttttggtttgatcag-
|||||| ||||||||||||||||||| |||||||| || ||| |||| ||||| |||||||||||||| |||||||| ||| |||| ||||| | |||| | |||| | || || ||| | | |||||| | | | | | ||| ||| | ||| | |
TGTTGTCAGCATGAAATGCAAGGCTGATCGTGTAGATGGGGGCTATGTACTTAATGGGAACAAGATGTGGTGTACTAATGGGCCAGTTGCTCAAACATTAgtaagtttctttaaatttcattgcattgactatattcgtgtttgatttgcctttggaaaactaaaagagcagtgtttccctaatttgtaatttcaatgga
upper sequence: AT3G45300.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA12G07570.1 (Glycine max), 5'ss of exon 7
TGTTGTTGGCATGAAATGCAAGGCTGAGAAGGTAGATGGTGGTTATATACTAAATGGCAACAAGATGTGGTGCACTAATGGTCCATCTGCTGAAACACTGgtaatatagtttagctcatatgttaacttctgaaactgattttctataattttaacagttttctaccatttgttgtttttttggtttgatcag---------
|||||| ||||||||||||||||||| |||||||| || ||| |||| ||||| |||||||||||||| |||||||| ||| |||| ||||| | ||| || |||| | || | ||| | || ||| | | | |||| || | | ||| | | |||
TGTTGTCAGCATGAAATGCAAGGCTGATCGTGTAGATGGGGGCTATGTACTTAATGGGAACAAGATGTGGTGTACTAATGGGCCAGTTGCTCAAACATTAgtatgattctttaaatttcattgcattttcccatgctc-tttgcattgactttattcgtgcttgatatgcctttggaaaactaaaaggg-cagtgtttccct
upper sequence: AT3G45300.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv06s0004g03140.t01 (Vitis vinifera), 5'ss of exon 7
TGTTGTTGGCATGAAATGCAAGGCTGAGAAGGTAGATGGTGGTTATATACTAAATGGCAACAAGATGTGGTGCACTAATGGTCCATCTGCTGAAACACTGgtaatatagtttagctca-tatgttaacttctgaaactgattttctataattttaacagttttctaccatttgttgtttttttggtttgatcag-------
||||||| | ||||| || || ||||| || ||||| |||||||| ||||||| ||||||||||||||||| ||||||||| |||| | ||||||||| | || | | | | |||| ||| ||| || | |||| | | ||| | ||| | |||
TGTTGTTAGTATGAAGTGTAAAGCTGATCGTGTTGATGGGGGTTATATTTTAAATGGAAACAAGATGTGGTGCACCAATGGTCCAATTGCTCAGACACTGgtatcttcattagtattgctttacttacttttgagtgcagctttg-attactttatttttctcaagacatatacacacaatttaactctatcgtggaattgMapped 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|124927231|gb|EL004987.1|EL004987EST: TAAATGGCAACAAGATGTGGTGCACTAATGGTCCATCTGCTGAAACACTG GTTGTTTACGCGAAAACTGATACAAAAGCAGGTTCCAAAGG
genomic: TAAATGGCAACAAGATGTGGTGCACTAATGGTCCATCTGCTGAAACACTGgtaatatagt ... gtttgatcagGTTGTTTACGCGAAAACTGATACAAAAGCAGGTTCCAAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTTGTTGGCATGAAATGCAAGGCTGAGAAGGTAGATGGTGGTTATATACTAAATGGCAACAAGATGTGGTGCACTAATGGTCCATCTGCTGAAACACTGgtaatatagtttagctcatatgttaacttctgaaactgattttctataattttaacagttttctaccatttgttgtttttttggtttgatcag
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