Sequence
atgc intronic sequence ATGC exonic sequence...agttggaccaacattaaacttattctttttcggggttcatgttagaaatgaattaatcaagaactctttgattacttgacattctgttttatttttgcagGTTTTGACACCATATAAAAAGAAGAAATATGTCTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCGGTTTCTC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22770.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G700148_T01 (Zea mays), 3'ss of exon 1
agttggaccaacattaaacttattctttttcggggttcatgttagaaatgaattaatcaagaactctttg--------attacttgacattctgttttat-ttttgcagGTTTTGACACCATATAAAAAGAAGAAATATGTCTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCGGTTTCTC
| || ||| | | | | | |||| | ||| | | | ||||| || ||| ||| | | ||||||| ||| ||||||| | ||||| |||||||| |||||||||||||| || ||||||| || || ||||| |||||||| |||||||| | || ||
---------agttgtaggcttgtagccctcccttgaatgttcctgaaacccctaaattatgggcactttgcaaccaatgctataaatcatatgatttcctatcttgcagGGCTTGTCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
upper sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 2
--agttggaccaacattaaacttattctttttcggggttcatgttagaaatgaattaatcaagaactctttgattacttgacattctgttttatttttgcagGTTTTGACACCATATAAAAAGAAGAAATATGTCTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCGGTTTCTC
| | | | | ||| | || | | || | | | || | ||| | || | | | | | || | || ||||| || ||||||| | ||||| |||||||| |||||||||||||| || ||||||| || || ||||| |||||||| |||||||| | || ||
catgcagttgtagccctccctttaatgttcctgtaacccctaattcgtgg-gcactactttgcaaccaatgctataaatcatgtgatttcttgtctt-gcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
upper sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 1
-agttggaccaacattaaacttattct----ttttcggggttcatgttagaaatgaattaatcaagaactctttgattacttgacattctgttttatttttgcagGTTTTGACACCATATAAAAAGAAGAAATATGTCTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCGGTTTCTC
| || ||| || ||| | | || | || | | | || || | | ||| | || || || ||| ||| ||| ||| | |||| |||||| | || ||||||||||| |||||||||||||| ||| ||||||| ||||| |||||||||||||| || ||||| || |||||||
ttgatgatccatggttccctggattgcaatgtcacaagaatttcttttgttgactagtaaactaatatttattt---ttttttacctttggttctatcttt--agGCTCTGACTCCATATGAGAAAAAGAAATATGTTTGGAAAATGCTTTACATATATATGCTTGGCTATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTC
upper sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 1
------agttggaccaacattaaacttattct--ttttcggggttcatgttagaaatgaattaatcaagaactctttgattacttgacattctgttttatttttgcagGTTTTGACACCATATAAAAAGAAGAAATATGTCTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCGGTTTCTC
| || ||| ||| ||| | | | || | ||| | | | || || | ||||| || || || ||| ||| ||| ||| |||||| |||||| | || ||||||||||| |||||||||||||| ||| ||||||| || || |||||||||||||| || ||||| || |||||||
agaaattgatgatccatgattccctggattgcaatgtcaagaatttcttttattgactagtaaactaatatatcttt------tttacctttggttctatcttt--agGCTTTGACTCCATATGAGAAAAAGAAATATGTTTGGAAAATGCTTTACATATATATGCTTGGATATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTC
upper sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 1
----agttggaccaacattaaacttattctttttcggggttcatgttagaaatgaattaatcaagaactctttgattacttgacattctgttttatttttgcagGTTTTGACACCATATAAAAAGAAGAAATATGTCTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCGGTTTCTC
|| ||| | | | || | | || | ||| || || || | || | | || | ||| | | ||| |||| ||||||||||||| |||| |||||||||||||||||||||||||| || ||||||| || || ||||| |||||||| || ||||| || |||||||
gcattattaacccatgttgatgtgcaggctgtct---aattttttttatttatttcttcttctgtatcttcctt-taacccaaaatttgatggtcctttgacagGGTTTGACACCATATGAAAAAAAGAAATATGTCTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatgaattaatcaagaactctttgattacttgacattctgttttatttttgcagGTTTTGACACCATATAAAAAGAAGAAATATGTCTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCGGTTTCTC
ttctgttttattttt CT-rich tract
attctgttttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttggaccaacattaaacttattctttttcggggttcatgttagaaatgaattaatcaagaactctttgattacttgacattctgttttatttttgcagGTTTTGACACCATATAAAAAGAAGAAATATGTCTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCGGTTTCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG