Sequence
atgc intronic sequence ATGC exonic sequencegtaagatcaataacttttgggtcacgatgtctctttaaactatagatactaagaaatctaagctattgtgaaaccagGAACGTGTATCAAACATAGCTTACAATGTTGTTAACGGCATTTGCACTCCAGTCAAAGATCAATCAGCTCCAGTCTATATCACCATTGGTGATGGAGGCA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G16430.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G16430.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G093101_T01 (Zea mays), 3'ss of exon 6
-------------------------gtaagatcaataacttttgggtcacgatgtctctttaaactatagatactaagaaatctaagctattgtgaaaccagGAACGTGTATCAAACATAGCTTACAATGTTGTTAACGGCATTTGCACTCCAGTCAAAGATCAATCAGCTCCAGTCTATATCACCATTGGTGATGGAGGCA
|| | | | ||| | ||| | || ||| | || | | | | | | ||| ||| | | |||| || | || ||||||||||| || ||| | ||||||||| || |||||||| || ||||| || |||||||| ||||||||||| |
tagtgcaagcttccagctcaatttgttagggttcagtactct--ggttatgacagtatcataatcctaagtcttgatgctgattgatgttctctgattgcagCACAGGATATCGAATGTCGCATACAATGTTGTGAATGGCCTGTGCACTCCAATCCCTGATCAATCGGCCCCAGTTTACATCACCATCGGTGATGGAGGGA
upper sequence: AT2G16430.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA09G36360.1 (Glycine max), 3'ss of exon 6
-----------------gtaagatcaataacttttg---ggtcacgatgtctctttaaactat----agatactaagaaatctaagctattgtgaaaccagGAACGTGTATCAAACATAGCTTACAATGTTGTTAACGGCATTTGCACTCCAGTCAAAGATCAATCAGCTCCAGTCTATATCACCATTGGTGATGGAGGCA
||| | | || | ||| | | || || ||| || | | | | || | ||||| | || | ||||| ||||| || || | || |||||| |||| || || |||| |||| || ||||||||||||||||| || ||||| ||||||||||||||||| |
aaaaacttaagatggaaataaactacaaaaatattgcacaattaatatacttcaataatcttttttgaatttgtctgattgatgagctactatgta-tcagGAGCGTGTTTCCAATGTTGCATACAATATTGTAAATGGTCTTTGTGCTCCTGTAAAAGATCAATCAGCTCCTGTATATATAACCATTGGTGATGGAGGAA
upper sequence: AT2G16430.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv03s0038g00230.t01 (Vitis vinifera), 3'ss of exon 6
------------------------gtaagatcaataacttt-tgggtcacgatgtctctttaaactatagatactaagaaatctaagctattgtgaaaccagGAACGTGTATCAAACATAGCTTACAATGTTGTTAACGGCATTTGCACTCCAGTCAAAGATCAATCAGCTCCAGTCTATATCACCATTGGTGATGGAGGCA
| | |||| || | | || | | |||||| ||| | | |||| ||| || | | || |||||||||| || ||||| ||||| || || | ||||||||||||||||| || || || || || || ||||| || ||||||||||| ||||| || |
ctgaagaaaactaccaaaaagagcattatttcaagaattctctgttttttgccttctcttccaacccgaca-gctaatgctagtaacttaatttatcac-agGAACGTGTGTCCAACATTGCTTATAACGTCATAAACGGCATTTGCACTCCTGTAAATGACCAGTCTGCACCAGTATACATCACCATTGGAGATGGGGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacgatgtctctttaaactatagatactaagaaatctaagctattgtgaaaccagGAACGTGTATCAAACATAGCTTACAATGTTGTTAACGGCATTTGCACTCCAGTCAAAGATCAATCAGCTCCAGTCTATATCACCATTGGTGATGGAGGCA
tttaaactatagata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagatcaataacttttgggtcacgatgtctctttaaactatagatactaagaaatctaagctattgtgaaaccagGAACGTGTATCAAACATAGCTTACAATGTTGTTAACGGCATTTGCACTCCAGTCAAAGATCAATCAGCTCCAGTCTATATCACCATTGGTGATGGAGGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG