Sequence
atgc intronic sequence ATGC exonic sequenceAGGAGTATTACATGATTTGCTTCAAAAGGAGGTGATAACTTTAAGGAAAGCTGCTAATGATAAAGATCAAAGCCTTAGAGATAAAGACGAAGCTATTGAGgttagtcattagttttacacctttccaagaaacgtttgcttatatttatttatattctctgatcaaaatacttgggcttgtgtttgcttttag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G01750.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G01750.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 9
AGGAGTATTACATGATTTGCTTCAAAAGGAGGTGATAACTTTAAGGAAAGCTGCTAATGATAAAGATCAAAGCCTTAGAGATAAAGACGAAGCTATTGAGgttagtcattagt---tttac-acctttccaagaaacgtttg--cttatatttatttat-attctctgatcaaaatacttgggcttgt-gtttgcttttag
|| || ||| |||| ||||| ||||| ||||||||| | || |||||||||| | |||| |||||||||||||| | |||||||| ||| ||||||||||| | | || || |||| ||| | || ||| | ||||||| || || || | || | || | | | || | ||
TGGTGTTTTATATGACTTGCTGCAAAAAGAGGTGATAGCCTTGAGGAAAGCTGGTCATGAGAAAGATCAAAGCCTAAAAGATAAAGGCGATGCTATTGAGgtaaatgtttggtctatttattgtatttggatataatccttgacttcttatttataaatgatagtccttgctaattgtttccaatggccatcatctatcag
upper sequence: AT2G01750.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA02G09390.1 (Glycine max), 5'ss of exon 9
AGGAGTATTACATGATTTGCTTCAAAAGGAGGTGATAACTTTAAGGAAAGCTGCTAATGATAAAGATCAAAGCCTTAGAGATAAAGACGAAGCTATTGAGgttagtcattagt---tttac-acctttccaagaaacgtttg----cttatatttattt-atattctctgatcaaaatacttgggcttgt-gtttgcttttag
| || ||| |||| || || ||||| ||||| ||| | || |||||||||| | | || |||||||||||||| | ||||||||| || ||||||||||| ||| || || |||| ||| | || ||| ||||| | || | ||| || || | || | || | || | || | ||
CAGTGTTTTATATGACTTTCTGCAAAAAGAGGTCATAGCCTTGAGGAAAGCTGGTCACGAGAAAGATCAAAGCCTAAAAGATAAAGATGATGCTATTGAGgtaagtgtttggtctatttattgtgtttggatataatccttgacttcttatgtataaatgatagtccttgct--aattgtttccaatggtcatcatctatcag
upper sequence: AT2G01750.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA05G34560.1 (Glycine max), 5'ss of exon 9
AGGAGTATTACATGATTTGCTTCAAAAGGAGGTGATAACTTTAAGGAAAGCTGCTAATGATAAAGATCAAAGCCTTAGAGATAAAGACGAAGCTATTGAGgttagtcattagttttacacctttccaagaaacgtttgcttatatttatttat-attctctgatcaaaatacttgggcttgtgtttgcttttag
||||| || |||||||||| || || ||||| || | || |||||||||| | |||| |||||||||||||| | ||||||||| || || ||||| |||||| ||| ||| | | || | | || || || | || || ||| | | || | | |||| || | ||
GGGAGTTTTGTATGATTTGCTGCAGAAAGAGGTCTTAGCCTTGAGGAAAGCTGGTCATGAGAAAGATCAAAGCCTAAAAGATAAAGATGATGCCATTGAAgttagtattta--tttgtttttggatattaatcttagatttctaattgataattataatcttagctaactgttgcaatggttgttatctgtcag
upper sequence: AT2G01750.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 9
AGGAGTATTACATGATTTGCTTCAAAAGGAGGTGATAACTTTAAGGAAAGCTGCTAATGATAAAGATCAAAGCCTTAGAGATAAAGACGAAGCTATTGAGgttagtcattagttttacacctttccaagaaacgtttgcttatatttatttatattctctgatcaaaatacttgggcttgtgtttgcttttag
||| || ||| ||||| |||| ||||| ||||| | |||| |||||||||| | |||| |||||||||||||| | |||||| || || |||||||||||| || | | || || || | | |||| || ||| ||||| | || ||| || |||| | || ||| ||
AGGGGTGTTATATGATATGCTGCAAAAAGAGGTCGTTTCTTTGAGGAAAGCTGGTCATGAAAAAGATCAAAGCCTCAAAGATAAGGATGATGCTATTGAGgttggtattcttgtcctcatctgtcttatga-----tgct----ttaattcatatt-tttgctcatg-tatttggatgta-attctttttcagMapped 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|116485598|gb|EG528190.1|EG528190EST: CTGCTAATGATAAAGATCAAAGCCTTAGAGATAAAGACGAAGCTATTGAG ATGTTGGCCAAGAAGGTTGAAACACTAACAAAGGCGATGGAAGTGGAAGCA
genomic: CTGCTAATGATAAAGATCAAAGCCTTAGAGATAAAGACGAAGCTATTGAGgttagtcatt ... ttgcttttagATGTTGGCCAAGAAGGTTGAAACACTAACAAAGGCGATGGAAGTGGAAGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGAGTATTACATGATTTGCTTCAAAAGGAGGTGATAACTTTAAGGAAAGCTGCTAATGATAAAGATCAAAGCCTTAGAGATAAAGACGAAGCTATTGAGgttagtcattagttttacacctttccaagaaacgtttgcttatatttatttatattctctgatcaaaatacttgggcttgtgtttgcttttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA