Sequence
atgc intronic sequence ATGC exonic sequence...tttttccttttcatttacaagtatgtgttgaactcaactcatgtggtttatagttacaaagatgcacttatctcatcttgtttttgtttttactttgtagGAAGCTTTATATTGCTGATGCAAGACCTAGGAAAAATGCATTAGCCAATGGAGCAATGGGAGGTGGCTCAGAATCATCTTCCAATTATTTTCAATCTGAA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G10550.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G10550.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA10G34510.1 (Glycine max), 3'ss of exon 4
-tttttccttttcatttacaagtatgtgttgaactcaactcatgtggtttatagttacaaagatgcac-ttatctcatcttgtttttgtttttactttgtagGAAGCTTTATATTGCTGATGCAAGACCTAGGAAAAATGCATTAGCCAATGGAGCAATGGGAGGTGGCTCAGAATCATCTTCCAATTATTTTCAATCTGAA
|| | | || ||| | || | | | ||| | | | ||| | | || | | |||| || || || || ||||| ||||||| ||||||| | ||||||||||||||||| || ||||| || ||||||||||| ||||||||||| || || ||||||||||||||
gttatgtatctttttttctgtgcgtgagaggggagggggggcgggggtaatttggtgcaatcctctgcattgttttgaaactttttaaattgtatttc--agAAAGCTGTATATTGTTGATGCACGGCCTAGGAAAAATGCATTGGCTAATGGTGCCATGGGAGGTGGTTCAGAATCATCATCAAACTATTTTCAATCTGAG
upper sequence: AT3G10550.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA20G33040.1 (Glycine max), 3'ss of exon 4
---------tttttccttttcatttacaagtatgtgttgaactcaactcatgtggtttatagttacaaagatgcacttatctcatcttgtttttgtttttactttgtagGAAGCTTTATATTGCTGATGCAAGACCTAGGAAAAATGCATTAGCCAATGGAGCAATGGGAGGTGGCTCAGAATCATCTTCCAATTATTTTCAATCTGAA
|| | | | || ||| | ||||| || | || |||| | | |||| || | | | | |||| || || || || ||||| ||||||| ||||||| | ||||||||||||||||| || ||||| || ||||||||||| ||||||||||| || || ||||||||||| ||
ctcaggtagttatgcatctttttttttgtgcatgtga-aaaggggggtaatttggtgcaatcctc------tgcatttttttgaaacttttttaaattgtatttc--agAAAGCTATATATTGTTGATGCACGGCCTAGGAAAAATGCATTGGCTAATGGTGCCATGGGAGGTGGTTCAGAATCATCATCAAACTATTTTCAATCCGAG
upper sequence: AT3G10550.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv13s0074g00300.t01 (Vitis vinifera), 3'ss of exon 10
tttttccttttcatttacaagtatgtgttg-aactcaactcatgtggtttatagttacaaagatgcacttatctcatcttgtttttgtttttactttgtagGAAGCTTTATATTGCTGATGCAAGACCTAGGAAAAATGCATTAGCCAATGGAGCAATGGGAGGTGGCTCAGAATCATCTTCCAATTATTTTCAATCTGAA
| | || | || || | || | | |||| | || | || | | | || | || | ||| ||||||||| ||||| ||||||||||||||||| |||||||| ||||| || ||||||||||||||||||||||| || ||||| |||||||||| |||||
-ggctgaatgaaatggtcttttaaatgatataaatgtatgtgtgtgcgcacttgtactatgtatattgtgggattaatttaatgaagtgtcacttttttagGAAGCTATATATCGCTGATGCAAGACCTAGAAAAAATGCTTTAGCAAACGGAGCAATGGGAGGTGGCTCAGAGTCCTCTTCTCATTATTTTCAGTCTGAG
upper sequence: AT3G10550.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: PP1S71_215V6.1 (Physcomitrella patens), 3'ss of exon 10
-tttttccttttcatttacaagtatgt-gttgaactcaactcatgtggtttatagttacaaagatgcacttatctcatcttgtttttgtttttactttgtagGAAGCTTTATATTGCTGATGCAAGACCTAGGAAAAATGCATTAGCCAATGGAGCAATGGGAGGTGGCTCAGAATCATCTTCCAATTATTTTCAATCTGAA
||| ||| || || || | |||| | | || | | | | | | | | | | | | || ||||| || |||||||||||||| |||||||||| |||||| |||||||||| | | ||| || || || |||||||| | |||||| | ||||||||
catttcaggttttgattggaaatacgaagttgcgagtgtcgggtctgctgagtgctaggtattgaacggtgaattaaa--tacctcaatcacatgaatgcagGAAACTGTATATTGCTGATGCTCGACCTAGGAAGAATGCACTAGCCAATGGTGTGACGGGTGGCGGATCGGAATCATCAGCTAATTATCTACAATCTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttatagttacaaagatgcacttatctcatcttgtttttgtttttactttgtagGAAGCTTTATATTGCTGATGCAAGACCTAGGAAAAATGCATTAGCCAATGGAGCAATGGGAGGTGGCTCAGAATCATCTTCCAATTATTTTCAATCTGAA
tctcatcttgtttttg CT-rich tract
tttttgtttttacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttccttttcatttacaagtatgtgttgaactcaactcatgtggtttatagttacaaagatgcacttatctcatcttgtttttgtttttactttgtagGAAGCTTTATATTGCTGATGCAAGACCTAGGAAAAATGCATTAGCCAATGGAGCAATGGGAGGTGGCTCAGAATCATCTTCCAATTATTTTCAATCTGAA
- - -ccttttc
- - - - - - - - acaagta
- - - - - - - - - - - - - - - aactcaa
- - - - - - - - - - - - - - - - - - - - - - ggtttat
- - - - - - - - - - - - - - - - - - - - - - - - - - - -acaaaga