Sequence
atgc intronic sequence ATGC exonic sequenceGAGGTTATGATATGGAGGAGAAAGCTGCTCGAGCATATGATCTTGCTGCACTCAAGTACTGGGGTCCCTCTACTCACACCAATTTCTCTgtaaatcatcttttctaaactttatgtctctttgaccttgttgtatgatttatttatataatatgataatggatatttgaag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G37750.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os03g56050.1 (Oryza sativa), 5'ss of exon 4
GAGGTTATGATATGGAGGAGAAAGCTGCTCGAGCATATGATCTTGCTGCACTCAAGTACTGGGGTCCCTCTACTCACACCAATTTCTCTgt----aaatcatcttttctaaactttatgtctctttgaccttgttgtatgatttatttatataatatgataatggatatttgaag----------------------------------------------------------------------------------
| || ||||| ||||||||||| ||||| | || |||||||||||||| |||||||||||||| || || || |||| ||| ||| | || |||| | | ||| | | | | || | || ||| | | || | | | | | | ||| || ||
GTGGGTATGACATGGAGGAGAAGGCTGCCAGGGCGTATGATCTTGCTGCGCTCAAGTACTGGGGCCCTTCCACGCACATCAACTTCCCGgtgattaaattaccaactctgattagttcatttgtt-gcttttcttgcaagcaaacagtacacattttagtt-tagattttagagtgctagctcaagggcactgtgaatgactgtagttatgatgttacggctatcattgacgtttgttttcaccattttctgggcag
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA17G17010.1 (Glycine max), 5'ss of exon 5
GAGGTTATGATATGGAGGAGAAAGCTGCTCGAGCATATGATCTTGCTGCACTCAAGTACTGGGGTCCCTCTACTCACACCAATTTCTCTgtaa-atcatcttttctaaactttatgtctctttgaccttgttgtatgattta--tttatataa-tatgat---aatggatatttgaag---------------------------------------
| |||||||||||||| || |||||||| |||| |||||||| |||||||||||||| ||||| ||||| ||||||| || || |||||| | | | || | | |||||| | || ||| | | ||| ||| | ||| ||| || | | |
GGGGTTATGATATGGAAGAAAAAGCTGCAAGAGCTTATGATCTAGCTGCACTCAAGTATTGGGGACCCTCCACTCACATAAACTTTCCTgtaataactaataacttatttctcttttctcttccatgtttccac-tgactcaagtttcagtaactgtgactaaaataataatcttatggcattttttttcttcttttccattctcttctaataaaag
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G22970.1 (Glycine max), 5'ss of exon 7
GAGGTTATGATATGGAGGAGAAAGCTGCTCGAGCATATGATCTTGCTGCACTCAAGTACTGGGGTCCCTCTACTCACACCAATTTCTCTgtaaatca-----------tcttttctaaactttatgtct---ctttgaccttgttgtatgatttatttatataatatgataatggatatttgaag-------------------------
| |||||||||||||| || |||||||| |||| |||||||| || ||||||||||| ||||| ||||| ||||||| || || ||||||| | |||||| | | |||| | || | | ||| ||| | | | | |||||| | || || ||||
GGGGTTATGATATGGAAGAAAAAGCTGCGAGAGCTTATGATCTAGCGGCACTCAAGTATTGGGGACCCTCCACTCACATAAACTTTCCTgtaaaactaataatatatttcttttttctcttccatgtttccactctcaagttgcagtaactgtgactaaaataataatctcattgacatttttttcttttccattctcttctaataacag
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA04G05080.1 (Glycine max), 5'ss of exon 5
GAGGTTATGATATGGAGGAGAAAGCTGCTCGAGCATATGATCTTGCTGCACTCAAGTACTGGGGTCCCTCTACTCACACCAATTTCTCTgtaaatcatcttttctaaactttatgtctctttgacct---tgttgtatgatttatttatataatatgataatggatatttgaag
| |||||||||||||||||||||||||| |||| |||||||| || || || ||||||||||| || || || || | || || || ||| || ||| | | | | |||| |||| | || | || | | | | | | | | | | | | ||
GGGGTTATGATATGGAGGAGAAAGCTGCAAGAGCCTATGATCTCGCGGCCCTTAAGTACTGGGGACCTTCAACGCATATAAACTTTTCGgtatatttcatttcgtgtagcatttttctccttgattcgaatcttttgtgctcgaaat-cacactctttttgtttactctggcag
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA0041S00200.1 (Glycine max), 5'ss of exon 7
GAGGTTATGATATGGAGGAGAAAGCTGCTCGAGCATATGATCTTGCTGCACTCAAGTACTGGGGTCCCTCTACTCACACCAATTTCTCTgtaaatcatcttttctaaactttatgtctctttgaccttgttgtatgatttatttatataatatgataa-tggatatttgaag-
| |||||||||||||| ||||||||||| | || ||||||||||| || |||||||| ||||| || || || |||| || ||| | ||| | | | | || ||| | | | ||||| | || | || | | ||||||
GTGGTTATGATATGGAAGAGAAAGCTGCAAGGGCTTATGATCTTGCGGCTCTCAAGTATTGGGGACCTTCAACACACATAAACTTCCCGgtatgt--ttcaattcaggtggcatttctggcttataatattgtacttctccttggagtcccattttctctttctatttggcag
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G05170.1 (Glycine max), 5'ss of exon 6
GAGGTTATGATATGGAGGAGAAAGCTGCTCGAGCATATGATCTTGCTGCACTCAAGTACTGGGGTCCCTCTACTCACACCAATTTCTCTgtaaatcatcttttcta-aactttatgtctctttgacct---tgttgtatgatttatttatataatatgataatggatatttgaag
|||||||||||||||| || |||||||| |||| |||||||| || || || ||||||||||| || || || |||| || || || ||| || ||| | | | || | | || |||| | | ||||| | | | | | | | || |
GAGGTTATGATATGGAAGAAAAAGCTGCAAGAGCCTATGATCTCGCGGCTCTTAAGTACTGGGGACCTTCAACGCACATAAACTTTTCGgtatatttcatttcgtgtagcattttttttccttgattcgaatctcgtatgctcgaaatcccattctttttgttcgctacggcag-
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G04910.1 (Glycine max), 5'ss of exon 5
GAGGTTATGATATGGAGGAGAAAGCTGCTCGAGCATATGATCTTGCTGCACTCAAGTACTGGGGTCCCTCTACTCACACCAATTTCTCTgtaa-----atcatcttttctaaactttatgtctctttgaccttgttgtatgatttatttatataatatgataatggatatttgaag--------------------
| |||||||||||||| || |||||||| |||| |||||| | || ||||||||||| ||||| ||||| | || | |||||| |||||| | | |||| | | || | | || | | | | | | || | || | |||| | || | | |
GGGGTTATGATATGGAAGAAAAAGCTGCAAGAGCTTATGATATGGCCGCACTCAAGTATTGGGGACCCTCCTCCCATATAAATTTCCCTgtaatgattactttttttttttcttctcattttttttctgattgggtctgtattcagcttccaggatttaataacag-taactaatgcatgtatgatctattaacag
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv18s0001g08610.t01 (Vitis vinifera), 5'ss of exon 5
GAGGTTATGATATGGAGGAGAAAGCTGCTCGAGCATATGATCTTGCTGCACTCAAGTACTGGGGTCCCTCTACTCACACCAATTTCTCTgtaaatcatcttttctaaactttatgtctctttgaccttgttgtatgatttatttatataatatgataatggatatttgaag-
| || ||||||||||| ||||||||||| |||| || ||||| || || ||||| |||||||| || |||||||| | ||| ||| | ||| | || || || |||| | | || | | || || | | || | || || ||
GGGGGTATGATATGGAAGAGAAAGCTGCAAGAGCTTACGATCTGGCGGCCCTCAAATACTGGGGACCTTCTACTCATATCAACTTCCCGgta--tgattcaacactggattaatctctcaatccattggtgacttaaattcttaaaacgcaattcttctgctctttggacagMapped 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|124912818|gb|EH986805.1|EH986805EST: CACACCAATTTCTCT GCGGAGAATTATCAGAAAGAGATTGAAGACATGAAGAACATGA
genomic: CACACCAATTTCTCTgtaaatcatc ... atatttgaagGCGGAGAATTATCAGAAAGAGATTGAAGACATGAAGAACATGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGGTTATGATATGGAGGAGAAAGCTGCTCGAGCATATGATCTTGCTGCACTCAAGTACTGGGGTCCCTCTACTCACACCAATTTCTCTgtaaatcatcttttctaaactttatgtctctttgaccttgttgtatgatttatttatataatatgataatggatatttgaag
- - - - - - - - - - - - - - - - - - - - - TGCTGC