Sequence
atgc intronic sequence ATGC exonic sequencegtgagtttatataatttcccctcatattcatctctataattcttttgttggtgttttatcaatcattcggcatctttctctcttttactctttagGATAAGAAAATTCCCAGGGCAAACAGAGTCCACGCTAAGTGCAGAAATTGAGTTGATCTCAACAATGGGAGAGAAGAAATCTTGGACAAGGCCACCGATC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G46630.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G46630.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA17G16630.1 (Glycine max), 3'ss of exon 10
gtgagtttatataatttcccctcatattcatctctataattctt--ttgttggtgttttatcaatcattcggcatcttt-----ctctcttttactctttagGATAAGAAAATTCCCAGGGCAAACAGAGTCCACGCTAAGTGCAGAAATTGAGTTGATCTCAACAATGGGAGAGAAGAAATCTTGGACAAGGCCACCGATC
| || ||||| | ||| || | | || || || || | | | || ||| || ||| || | | || | | |||||| ||||||||||| |||||||| ||||| || ||||||||||| |||| | || || |||| ||| |||||||||||||| || ||||| ||
--acccctcactattttccatttatactctagtttttagtttttcattatagtaggttagtcattctaatatcattattggttgtttttcctttatttctagGATTAGAAAATTCCCTGGGCAAACCGAGTCAACCTTAAGTGCAGAAGTTGAACTTATTTCCACAACAACAGAAAAGAAATCTTGGACTAGACCACCAATT
upper sequence: AT5G46630.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv02s0012g00910.t01 (Vitis vinifera), 3'ss of exon 10
----gtgagtttatataatttcccctcatattcatctctataattcttttgttggtgttttatc-aatcattcggcatctttctctcttttactctttagGATAAGAAAATTCCCAGGGCAAACAGAGTCCACGCTAAGTGCAGAAATTGAGTTGATCTCAACAATGGGAGAGAAGAAATCTTGGACAAGGCCACCGATC
| | | ||| || | || | | | ||| | || | || | ||| | | | || ||| ||| ||| | |||||||||||| || || || ||||| ||| | || | ||||||||| | |||||||| || || |||| ||| ||||| |||||||| |||||||||||
ccaaaataaaaaacaaaataaaatcttcttttaaatgtcacatttcagaaggggggttaatagctaatttatgtgtgtaattttctttttaactttgtagGATAAGAAAGTTTCCTGGACAAACTGAGCCAACAATGAGTGCAGAAGTAGAGTTGATTTCCACGATGGCAGAAAAGAAGTCTTGGACCAGGCCACCGATTMapped 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|124751123|gb|EH841253.1|EH841253EST: AACTGGTCGCGCTAAATACAATCCATCAATCGATTGCTTGGTTTGGAA GATAAGAAAATTCCCAGGGCAAACAGAGTCCACGCTAAGTGCAGAAATTGA
genomic: AACTGGTCGCGCTAAATACAATCCATCAATCGATTGCTTGGTTTGGAAgtgagtttat ... tactctttagGATAAGAAAATTCCCAGGGCAAACAGAGTCCACGCTAAGTGCAGAAATTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttttgttggtgttttatcaatcattcggcatctttctctcttttactctttagGATAAGAAAATTCCCAGGGCAAACAGAGTCCACGCTAAGTGCAGAAATTGAGTTGATCTCAACAATGGGAGAGAAGAAATCTTGGACAAGGCCACCGATC
ttcggcatctttctct CT-rich tract
ttttatcaatcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtttatataatttcccctcatattcatctctataattcttttgttggtgttttatcaatcattcggcatctttctctcttttactctttagGATAAGAAAATTCCCAGGGCAAACAGAGTCCACGCTAAGTGCAGAAATTGAGTTGATCTCAACAATGGGAGAGAAGAAATCTTGGACAAGGCCACCGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA