Sequence
atgc intronic sequence ATGC exonic sequence...gaatcatttatgtttctcaccttacgatttcgtttttgaagcatttggttttagattagagtagagaaccttaggattgatttatggatgttcgttgtagTTTTCAATTGACGCCGCCGACGAATTGGGGAATCCGGATAGTTCCGGAGAGGAAGGCGTTTGTGATTGAGCGATTCGGTAAATACGCTACGACGTTGCCG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G27585.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G27585.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA04G40420.1 (Glycine max), 3'ss of exon 1
gaatcatttatgtttctcaccttacgattt-cgtttttgaagcatttggttttagattagagtagagaaccttaggattgatttatggatgttcgttgtagTTTTCAATTGACGCCGCCGACGAATTGGGGAATCCGGATAGTTCCGGAGAGGAAGGCGTTTGTGATTGAGCGATTCGGTAAATACGCTACGACGTTGCCG
| |||| |||| || | || | || || || | ||| || | || | | || | || || ||| | | || | | | || | | | | |||||| ||||||||| || ||||| || ||||||| ||||||||||||||||||||||||||| || |||| | ||| |
gttagttttaggttttgcagccaacaaattacgattcttttttctttctttctttcttttacttgat--tttgagagtt--tttgttgttga--atagGACTTATGAGATAATTCCGCCGGTGAATTGGGGGATTCGGATTGTGCCGGAGAAGAAGGCGTTTGTGATTGAGCGATTCGGGAAGTACGTCAAGACTCTT---
upper sequence: AT4G27585.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA06G14340.1 (Glycine max), 3'ss of exon 1
gaatcatttatgtttctcaccttacgatttcgtttttgaagcatttggttttagattagagtagagaaccttaggattgatttatggatgttcgttgtagTTTTCAATTGACGCCGCCGACGAATTGGGGAATCCGGATAGTTCCGGAGAGGAAGGCGTTTGTGATTGAGCGATTCGGTAAATACGCTACGACGTTGCCG
| | |||| ||||| || | || | || || ||| |||| ||| | | | || ||| || | || || | | | | | | | |||||| ||||||||| || ||||| || ||||||| ||||||||||||||||||||||||||| || |||| | ||| |
gttacttttaggtttcgcagccaacaaatt-acgattcctttttttttttttgaattggtttttgagagttt----ttg--ttgtcga-----gtagAACATATGAGATTATTCCGCCGGTGAATTGGGGGATTCGGATTGTGCCGGAGAAGAAGGCGTTTGTGATTGAGCGATTCGGGAAGTACGTCAAGACTCTT---Mapped 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|124978656|gb|EL051804.1|EL051804EST: GCCGCTTCAACCGTTCGCCAGTTCACTTCCGCCGGCTATCCTTCCAACAG TTTTCAATTGACGCCGCCGACGAATTGGGGAAT
genomic: GCCGCTTCAACCGTTCGCCAGTTCACTTCCGCCGGCTATCCTTCCAACAGgtttttcacc ... ttcgttgtagTTTTCAATTGACGCCGCCGACGAATTGGGGAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggttttagattagagtagagaaccttaggattgatttatggatgttcgttgtagTTTTCAATTGACGCCGCCGACGAATTGGGGAATCCGGATAGTTCCGGAGAGGAAGGCGTTTGTGATTGAGCGATTCGGTAAATACGCTACGACGTTGCCG
gattgat putative branch site (score: 4)
attgatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaatcatttatgtttctcaccttacgatttcgtttttgaagcatttggttttagattagagtagagaaccttaggattgatttatggatgttcgttgtagTTTTCAATTGACGCCGCCGACGAATTGGGGAATCCGGATAGTTCCGGAGAGGAAGGCGTTTGTGATTGAGCGATTCGGTAAATACGCTACGACGTTGCCG
- - - - - - - - - - - - - - - -gtttttg
- - - - - - - - - - - - - - - - - - - - - - - ggtttta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacctta