Sequence
atgc intronic sequence ATGC exonic sequencegtattattagattagtctaagaaactgtcacaaaattgttgcatgactcgttaagagtaaatgtaatgtattaaagctcttataattccatcagatacttgcagGATTGTCAACGGTCTTCTCAAAACTGCTCTAGGACCACCCACCGGATCATCAACAACGTTGTCTCCAGCGCAAGATAGTACATTCAGGAATGATTCTGTC
Basic information
species | Arabidopsis thaliana |
transcript | AT4G35380.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G35380.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA02G48200.1 (Glycine max), 3'ss of exon 2
gtattattagattagtctaagaaactgtcacaaaattgttgcatgactcgttaagagtaaatgtaatgtattaaagctcttataattccatcagatacttgcagGATTGTCAACGGTCTTCTCAAAACTGCTCTAGGACCACCCACCGGATCATCAACAACGTTGTCTCCAGCGCAAGATAGTACATTCAGGAATGATTCTGTC
|| | |||| | | | | | | || || | || | | | ||||| || ||||||||||||||||||||| ||||||||||||||| |||||||| ||||||||| | ||||||||||| || ||| | || | ||||||||||| || |||| ||| ||| | |||| |||||
----tacaaatctagtagacagatttttttatttacttatgtttgtttgattttgtatcttgttttagtatttaaactcttataattccatcagatatttgcagGATTGTCAATGGTCTTCTGAAAACTGCTTTGGGACCACCCACAGGGTCAACCACTGCTTTGTCTCCAGCACAGGATATTACTTTCCGACATGAATCTGTG
upper sequence: AT4G35380.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA14G00230.1 (Glycine max), 3'ss of exon 3
gtattattagattagtctaagaaactgtcacaaaattgttgcatgactcgttaagagtaaatgtaatgtattaaagctcttataattccatcagatacttgcagGATTGTCAACGGTCTTCTCAAAACTGCTCTAGGACCACCCACCGGATCATCAACAACGTTGTCTCCAGCGCAAGATAGTACATTCAGGAATGATTCTGTC
| || |||| | | | | | | | || || | || | | | ||||| || ||||||||||||||||||||| ||||||||||||||| |||||||| ||||| ||| | |||||||| || || ||| | || | ||||||||||| || |||| ||| ||| | |||| |||||
--agtacatatctagt--gacagattttttatttacttatgtttgtttgattttgcatcttgttttagtatttaaactcttataattccatcagatatttgcagGATTGTCAATGGTCTTCTGAAAACCGCTTTGGGACCACCTACAGGGTCAACCACTGCTTTGTCTCCAGCACAGGATATTACTTTCCGACATGAATCTGTG
upper sequence: AT4G35380.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv03s0038g04090.t01 (Vitis vinifera), 3'ss of exon 2
gtattattagattagtctaagaaactgtcacaaaattgttgcatgactcgttaagagtaaatgtaatgtattaaagctcttataattccatcagatacttgcagGATTGTCAACGGTCTTCTCAAAACTGCTCTAGGACCACCCACCGGATCATCAACAACGTTGTCTCCAGCGCAAGATAGTACATTCAGGAATGATTCTGTC
|| ||| | ||| | | | | ||| | || | | | | ||| |||||||||| | ||| ||||||||||||||| |||||||| |||||| || ||||| ||||| || ||||| ||||| | || || | ||||| |||||||| |||||| ||||| || ||| || ||
-cataatttg-ttatttttgaccattttcatt--gtcatttctttttcgcattttgtttaataacatgtattaaaacccttttaattccatcagatatttgcagGACTGTCAATGGCCTTCTGAAAACGGCACTAGGTCCACCTCCTGGTTCTACTACAACCTTGTCTCCCATCCAAGATTTGACATTTCGGCTTGAATCAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaagagtaaatgtaatgtattaaagctcttataattccatcagatacttgcagGATTGTCAACGGTCTTCTCAAAACTGCTCTAGGACCACCCACCGGATCATCAACAACGTTGTCTCCAGCGCAAGATAGTACATTCAGGAATGATTCTGTC
taaatgtaatgtatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattattagattagtctaagaaactgtcacaaaattgttgcatgactcgttaagagtaaatgtaatgtattaaagctcttataattccatcagatacttgcagGATTGTCAACGGTCTTCTCAAAACTGCTCTAGGACCACCCACCGGATCATCAACAACGTTGTCTCCAGCGCAAGATAGTACATTCAGGAATGATTCTGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA