Sequence
atgc intronic sequence ATGC exonic sequencegttagttctgtcaattcgactaatggcctaccaacaaaaaaagaagtattatcttcttattgaatgcttgggttctgcagGTGTGCATGACTCATACTGGACCCATGCATGTGACGTTGACACAATGAACAGAATACTTAGAGAGAAATTCGTTGAGCTTTACAACACACCGATCCTTGA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G24120.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G24120.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: Vv11s0037g00630.t01 (Vitis vinifera), 3'ss of exon 17
--------------gttagttctgtcaattcgacta-atggcctaccaa-----caaaaaaagaagtattatcttcttattgaatgcttgggttctgcagGTGTGCATGACTCATACTGGACCCATGCATGTGACGTTGACACAATGAACAGAATACTTAGAGAGAAATTCGTTGAGCTTTACAACACACCGATCCTTGA
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cttattcttctcttgataagatcgagcacaggactatatgaaaaattaaactttttagaacacaattctcacatcctcgtcctacaaaatctctgtgcagGGGTGCATGACTCCTTCTGGACACATGCATGTGATGTTGACAAGATGAATCAGATACTTCGGGAAAAATTTGTAGAGCTTTACAGTATGCCAATACTTGA
upper sequence: AT2G24120.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: PP1S256_41V6.1 (Physcomitrella patens), 3'ss of exon 17
----------------------------------------------------------------------------------------------gttagttctgtcaattcgactaatggcctaccaacaaaaaaagaagtattatcttcttattgaatgcttgggttctgcagGTGTGCATGACTCATACTGGACCCATGCATGTGACGTTGACACAATGAACAGAATACTTAGAGAGAAATTCGTTGAGCTTTACAACACACCGATCCTTGA
| || || ||| | | || | | | | | || || || || ||| || | |||||||||||||||| ||||||||||| |||||| ||||||| || ||||||||| | || | ||||| || ||||| || |||| ||| | | ||
gtacataattatgtatacatagcttgatgtgcattctattattctgcattcgatatgcagtaggtgcttatggatttattttcttcatgaacatcctcgtaaattcttttcttattacagcttttctccgttcacaagcttac-atgtttttgttg-----tttgtaactgcagGTGTGCATGATTCATACTGGACACATGCAGGTGACGTAGAGCAAATGAACAGCCTGCTCCGTGAGAAGTTTGTTGAACTCTACAGTCAACCAGTTTTGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcctaccaacaaaaaaagaagtattatcttcttattgaatgcttgggttctgcagGTGTGCATGACTCATACTGGACCCATGCATGTGACGTTGACACAATGAACAGAATACTTAGAGAGAAATTCGTTGAGCTTTACAACACACCGATCCTTGA
aaaaaaagaagtatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttctgtcaattcgactaatggcctaccaacaaaaaaagaagtattatcttcttattgaatgcttgggttctgcagGTGTGCATGACTCATACTGGACCCATGCATGTGACGTTGACACAATGAACAGAATACTTAGAGAGAAATTCGTTGAGCTTTACAACACACCGATCCTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT