Sequence
atgc intronic sequence ATGC exonic sequencegtaatgcctcagctccggttttgtttaccatcgtgtcttgtttctctaagaagatgctctgtttatgcatgtagtctaatcttctgtttgtttctttcctctgtaattaatcagCATAAATGCTTCATAGTAGCTACTTGTGATAGAGATCTAAAGCGAAGGATTCGCAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G26530.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G26530.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G140689_T01 (Zea mays), 3'ss of exon 5
gtaatgcctcagctccggttttgtttaccatcgtgtcttgtttctctaagaagatgctctgtttatgcatgtagtctaatcttctgtttgtttctttcctctgtaattaatcagCATAAATGCTTCATAGTAGCTACTTGTGATAGAGATCTAAAGCGAAGGATTCGCAAG
| |||| | || | || || | | | | | | || | ||||| ||||||| |||||| |||||||||||||||||| | || | ||||| | |||
-------------nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnctacggcatcttgttttattttgtttctaaaccataaaattttacgtgg-cagCACAAATGCTACATAGTTGCTACTTGTGATAGAGATTTGAAAAGGAGGATAAGAAAG
upper sequence: AT1G26530.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G017761_T01 (Zea mays), 3'ss of exon 8
gtaatgcctcagctccggttttgtttaccatcgtgtcttgtttctctaagaagatgctctgtttatgcatgtagtctaatcttctgtttgtttctttcctctgtaattaatcagCATAAATGCTTCATAGTAGCTACTTGTGATAGAGATCTAAAGCGAAGGATTCGCAAG
| | || || | | | || || || ||| || | | || |||| | || | || | ||| | | | || | ||||| ||||||| |||||| |||||||||||||||||| | || | ||||| | |||
-caccttcacaatacctagtcaaatgattattttggtttatttaccttgtatg---------ctaggcatcttgttttattt---gttctaaaccatatattttacgtgg-cagCACAAATGCTACATAGTTGCTACTTGTGATAGAGATTTGAAAAGGAGGATAAGAAAG
upper sequence: AT1G26530.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G016330_T02 (Zea mays), 3'ss of exon 5
gtaatgcctcagctccggttttgtttaccatcgtgtcttgtttctctaagaagatgctctgtttatgcatgtagtctaatcttctgtttgtttctttcctctgtaattaatcagCATAAATGCTTCATAGTAGCTACTTGTGATAGAGATCTAAAGCGAAGGATTCGCAAG
| | || || | | | || || || ||| || | | || |||| | || | || | ||| | | | || | ||||| ||||||| |||||| |||||||||||||||||| | || | ||||| | |||
-caccttcacaatacctagtcaaatgattattttggtttatttaccttgtatg---------ctacgcatcttgttttattt---gttctaaaccatatattttacgtgg-cagCACAAATGCTACATAGTTGCTACTTGTGATAGAGATTTGAAAAGGAGGATAAGAAAGMapped 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|116464334|gb|EG506926.1|EG506926EST: TACTCAAAGGGACATATGCTGATGACTGTCTTGTGGACAGAGTTACTCAG CATAAATGCTTCATAGTAGCTACTTGTGATAGAGTTCTAAAGCGAAGGATT
genomic: TACTCAAAGGGACATATGCTGATGACTGTCTTGTGGACAGAGTTACTCAGgtaatgcctc ... aattaatcagCATAAATGCTTCATAGTAGCTACTTGTGATAGAGATCTAAAGCGAAGGATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttatgcatgtagtctaatcttctgtttgtttctttcctctgtaattaatcagCATAAATGCTTCATAGTAGCTACTTGTGATAGAGATCTAAAGCGAAGGATTCGCAAG
gtctaat putative branch site (score: 3)
tttctttcctctgta putative PPT
tgtaattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgcctcagctccggttttgtttaccatcgtgtcttgtttctctaagaagatgctctgtttatgcatgtagtctaatcttctgtttgtttctttcctctgtaattaatcagCATAAATGCTTCATAGTAGCTACTTGTGATAGAGATCTAAAGCGAAGGATTCGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC