Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgtatgagaattaacgttttatctttatgaaacctatattatattgtcgtcacatcattgaagtgaaatatcaatatgacatgcattcttcttcttttcctggttatttatttccctcatgaagCTTGGAAAAAAGAGTGAACAAGAAGGTTATGGCTATGTTTGAGAAAGCAGAAGATGAATACAATGCTCTGATATCGAAAAAAAATACTATCGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G62410.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G62410.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA13G27210.1 (Glycine max), 3'ss of exon 16
gtatgtgtatgagaattaacgttttatctttatgaaacctatattatattgtcgtcacatcattgaagtgaaatatcaatatgacatgcattcttcttcttttcctggttatttatttccctcatgaagCTTGGAAAAAAGAGTGAACAAGAAGGTTATGGCTATGTTTGAGAAAGCAGAAGATGAATACAATGCTCTGATATCGAAAAAAAATACTATCGAG
|||| | | || | ||| ||| | | | || | || | | | | | | ||||| || || | | || | | ||| ||| | | || | ||||| ||||||| || |||||||| || ||||| ||||||||||| ||||||||||| ||||||| | |||| || |||||| | | || |||
----gtgtgttgctttaaaaatcttacttttgtattatcaat-tcatgt---------gcaactacaattagatatcctcatttactgtgattacacttttgttttcgttgttt--tgcatccacaagGCTTG-AAAAAAGGGTAAACAAGAAAGTGATGGCAATGTTTGAGAAGGCAGAAGATGAGTACAATGATTTGATGTCCAAAAAATACATAATTGAG
upper sequence: AT5G62410.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA12G36520.1 (Glycine max), 3'ss of exon 16
gtatgtgtatgagaattaacgttttatctttatgaaacctatattatattgtcgtcacatcattgaagtgaaatatcaatatgacatgcattcttcttcttttcctggttatttatttccctcatgaagCTTGGAAAAAAGAGTGAACAAGAAGGTTATGGCTATGTTTGAGAAAGCAGAAGATGAATACAATGCTCTGATATCGAAAAAAAATACTATCGAG
|||| | | || || | | || | | | | || | || | | | | | | ||||| || || | | || | | || ||| | | ||| | ||||| | ||||| ||||||||||| || ||||| ||||||||||| || |||||||| ||||||| | |||| || |||||||| | || |||
----gtgtgttgctttgaaagtctaacattactaatatcaat-tcatgt---------gcaactacaattagatatcctcatttactgtggtgacacttttgtttttattgttt--tgcatccataagGCTTG-AGAAAAGGGTGAACAAGAAAGTGATGGCAATGTTTGAGAAGGCTGAAGATGAGTACAATGATTTGATGTCCAAAAAAAACATAATTGAG
upper sequence: AT5G62410.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 15
gtatgtgtatgagaattaacgttttatctttatgaaaccta-tattatattgtcgtcacatcat-tgaagtgaaatatcaatatgacatgcattcttcttcttttcctggttatttatttccctcatgaagCTTGGAAAAAAGAGTGAACAAGAAGGTTATGGCTATGTTTGAGAAAGCAGAAGATGAATACAATGCTCTGATATCGAAAAAAAATACTATCGAG
| |||| || || | | || | | | | |||| |||| | | | ||| || || | || || |||| || ||| ||| |||| ||||| ||||| ||||| |||||||| ||||||||||||||||||||||| ||||||| | ||||| || |||| | || |||
------------------------------actcaaacgtagtaccgtgctatcattatcttctgtgaaatgaagaggtagcaaagaaca-attttttactgattgttttttcttcttttcactaatgtagCCTGGAGAAAAGGGTGAATAAGAAAGTTATGGCAATGTTTGAGAAAGCAGAAGATGAGTACAATGAATTAATATCCAAGAAAAGCATAATTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcaatatgacatgcattcttcttcttttcctggttatttatttccctcatgaagCTTGGAAAAAAGAGTGAACAAGAAGGTTATGGCTATGTTTGAGAAAGCAGAAGATGAATACAATGCTCTGATATCGAAAAAAAATACTATCGAG
cattcttcttcttttc CT-rich tract
ttatttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgtatgagaattaacgttttatctttatgaaacctatattatattgtcgtcacatcattgaagtgaaatatcaatatgacatgcattcttcttcttttcctggttatttatttccctcatgaagCTTGGAAAAAAGAGTGAACAAGAAGGTTATGGCTATGTTTGAGAAAGCAGAAGATGAATACAATGCTCTGATATCGAAAAAAAATACTATCGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG