Sequence
atgc intronic sequence ATGC exonic sequencegtattttgaaacacatcttctgctatatataacaacatcatgtatgattgttgaactcttgatatgatcttctcagGTGCTTTGTTCTCTTATAGAGAGTACAAAAGATATCAAAGGGGTAAAAGTAGAAGACAACAAGTTCTGCATCTCTGTGCATTACCGCAATGTAGAAGAAA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G51460.3 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G51460.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G178546_T01 (Zea mays), 3'ss of exon 6
gtattttgaaacacatcttctgctatatataacaacatcatgtatgattgttgaactcttgat--atgatcttctcagGTGCTTTGTTCTCTTATAGAGAGTACAAAAGATATCAAAGGGGTAAAAGTAGAAGACAACAAGTTCTGCATCTCTGTGCATTACCGCAATGTAGAAGAAA
|||| ||| | | | | || | | | | |||| || |||| ||| ||| || | | |||||| | ||| |||||| || || || | || | || | ||||||||||||||||| | |||||||||||||| ||||| | |||
gtatgttgtaccggcctcttgagtttaagttgccatcttatgtcatatggttggacttctgagtggtgtacatgccagGTGTATGAAAAACTTGGTGAGAGTGTTAAGGACATTGATGGTGCAAGGATGGAAGACAACAAGTTCTGTGTATCTGTGCATTACCGTAATGTGGCGGAAG
upper sequence: AT5G51460.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv16s0022g00660.t01 (Vitis vinifera), 3'ss of exon 5
--------------------------------gtattttgaaacacatcttctgctatatataacaacatcatgtatgattgttgaactcttgatatgatcttct-----cagGTGCTTTGTTCTCTTATAGAGAGTACAAAAGATATCAAAGGGGTAAAAGTAGAAGACAACAAGTTCTGCATCTCTGTGCATTACCGCAATGTAGAAGAAA
| | || |||| ||| | || | || | | | ||| ||| || | ||| | | | | | ||||| || | || ||| | | |||| ||||| |||||||| | | |||||||| | || |||||||| ||||||| |||||||||||||| || || |
gtatgccaatgtctcctccacaatgacatgtaatgtgatgcaacaaatcatttgttgtaccttgtattccctaatataatta--gattttttggtttatttgtgtttgagcagGTTTTTAGATCCCTTGTCAGGTGTACTAAAGAAATCAAAGGAGCAGAAGTAGAAAATAATAAGTTCTGTGTCTCTGTACATTACCGCAATGTGGATGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctatatataacaacatcatgtatgattgttgaactcttgatatgatcttctcagGTGCTTTGTTCTCTTATAGAGAGTACAAAAGATATCAAAGGGGTAAAAGTAGAAGACAACAAGTTCTGCATCTCTGTGCATTACCGCAATGTAGAAGAAA
tcttctc CT-rich tract
atataacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattttgaaacacatcttctgctatatataacaacatcatgtatgattgttgaactcttgatatgatcttctcagGTGCTTTGTTCTCTTATAGAGAGTACAAAAGATATCAAAGGGGTAAAAGTAGAAGACAACAAGTTCTGCATCTCTGTGCATTACCGCAATGTAGAAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA