Sequence
atgc intronic sequence ATGC exonic sequencegtaacttagccgtggtttttatgcatccatttttacactttattgtatagaactaaactgtattaatgtgatctgaatagGTCCTTGGGAACAAGTACCAGAACAAATTACTTGAGATGATTGATGCAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G19650.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G19650.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA14G07850.1 (Glycine max), 3'ss of exon 6
-------------------------------------------------------gtaacttagccgtggtttttatgcatccatttttacactttattg-tatagaactaaactgtattaatgtgatctgaatagGTCCTTGGGAACAAGTACCAGAACAAATTACTTGAGATGATTGATGCAAG
|| | | | ||| | | | | | | ||| ||||| | | | || | || || | ||||| ||||| ||||||| ||| |||| ||||||||| || |||||||||||
gtgcgtgccaattatttgatcttttattctttctgttttagagttttataggctttcaataaaataattatcttttacagtttacagagataatctgttggtatagtattgattgatacttcaatgttcc-attagGTTCTTGGAAACAAGTTCCATAACAGATTACTTGAAATTATTGATGCAAG
upper sequence: AT1G19650.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA17G37150.1 (Glycine max), 3'ss of exon 6
----------------------------------------------gtaacttagccgtggtttttatgcatccatttttacactttattg-tatag----aactaaactgtattaatgtgatctgaatagGTCCTTGGGAACAAGTACCAGAACAAATTACTTGAGATGATTGATGCAAG
| | || | || |||| | | | | | | | ||| ||||| || ||| || | || || | ||||| ||||| ||||||| |||||||| |||||| || || |||||||||||
gtatgtgtcaattatttgatctgtttttgatttttataggctttcaatgaaataatcatgcttttca---gtttacagagataatctgttggtatagtattaattaattgatacttcaatgttcc-attagGTTCTTGGAAACAAGTTCCAGAACAGATTACTAGAAATTATTGATGCAAGMapped 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|86088306|gb|DR384065.1|DR384065EST: GGGGCACGGTGAAATCGTTTCTTGATCCAAAGACTGTCTCCAAAATACAT GTCCTTGGGAACAAGTACCAGAACAAATTACTTGAGATGATTGATGCAAG
genomic: GGGGCACGGTGAAATCGTTTCTTGATCCAAAGACTGTCTCCAAAATACATgtaacttagc ... atctgaatagGTCCTTGGGAACAAGTACCAGAACAAATTACTTGAGATGATTGATGCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccatttttacactttattgtatagaactaaactgtattaatgtgatctgaatagGTCCTTGGGAACAAGTACCAGAACAAATTACTTGAGATGATTGATGCAAG
tattaat putative branch site (score: 2)
ttttacactttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacttagccgtggtttttatgcatccatttttacactttattgtatagaactaaactgtattaatgtgatctgaatagGTCCTTGGGAACAAGTACCAGAACAAATTACTTGAGATGATTGATGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG