Sequence
atgc intronic sequence ATGC exonic sequencegtacaacaaaaagctacaagaagttggtttgtattctcggttataactacttggcgataacatttgtgtttttggtggtttcccagATACTTGGTTTCTTCTTTGCTGGTGTTGTACTCAACCAATTTGGTTTGATTAGAAATCTCACAGATGTTAAAGTTCTTTCAGAATGGGGGATTCTTTTCC
Basic information
species | Arabidopsis thaliana |
transcript | AT4G04850.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA07G30360.2 (Glycine max), 3'ss of exon 3
------gtacaaca-aaaagctacaagaagttggttt-gtattctcggttataactacttggcgataacatttg---tgtttttggtggt-----ttcccagATACTTGGTTTCTTCTTTGCTGGTGTTGTACTCAACCAATTTGGTTTGATTAGAAATCTCACAGATGTTAAAGTTCTTTCAGAATGGGGGATTCTTTTCC
| ||| | || || |||| | | || || || || || ||| | ||| | ||| | ||| |||| || ||||||||||||||||||| ||||||||| |||||||| || |||||||| |||||||| || ||||||||||||||| | || ||||||||||| ||||||
tgttgaatctcacacacaaaatagcagaattagacttagtgttatctattt--actttcttatattaataattgaaataaatttaatggttgttattttcagATACTTGGTTTCTTCTGTGCTGGTGTGGTACTCAATCAGTTTGGTTTAATTAGAAACCTTACAGATGTTAAAGTTTTATCCGAATGGGGGATCCTTTTCT
upper sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G06890.3 (Glycine max), 3'ss of exon 2
----------------gtacaacaaaaagctacaagaagt-tggtttgtattctcggttataactacttggcgataacatttgtgtttttggtggtttcccagATACTTGGTTTCTTCTTTGCTGGTGTTGTACTCAACCAATTTGGTTTGATTAGAAATCTCACAGATGTTAAAGTTCTTTCAGAATGGGGGATTCTTTTCC
| || | | ||||| ||| | | | | | || ||||| || | || | | || | ||| | |||| |||||||||||||||||| ||||||||| ||||| || || |||||||| |||||||| || |||||||| |||| | | |||||||||||||| ||||||
cgttgaatctcacacagatcatagtagaattacaatcagtgttatctatttactttcttata-ttaataattgaaataaatttaatggttgttattttc--agATACTTGGTTTCTTCTGTGCTGGTGTGGTACTGAATCAGTTTGGTTTAATTAGAAACCTTACAGATGTCAAAGCTTTATCAGAATGGGGGATCCTTTTCT
upper sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 2
-----------gtacaacaaaaagctacaagaagt--tggtttgtattctcggttataactacttggcgataacatttgtgtttttggtggtt--tcccagATACTTGGTTTCTTCTTTGCTGGTGTTGTACTCAACCAATTTGGTTTGATTAGAAATCTCACAGATGTTAAAGTTCTTTCAGAATGGGGGATTCTTTTCC
|||| | || | ||| | || | || || || || ||| || || || | || | | | | | | ||||||||||||||||||||||| || ||||| ||||| || |||| ||||| | ||||| ||||||||||||||||| || || |||||||||||||||
ttttttttttggtactagaatatcctagtataattcttgacaggttttatcagttgcaatatttttcaaatgatgattaagagat-gataactgctttcagATACTTGGTTTCTTCTTTGCGGGGGTTGTGCTCAATCAGCTTGGACTGATTCGGAATCTTACAGATGTTAAAGTTCTATCTGAGTGGGGGATTCTTTTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattctcggttataactacttggcgataacatttgtgtttttggtggtttcccagATACTTGGTTTCTTCTTTGCTGGTGTTGTACTCAACCAATTTGGTTTGATTAGAAATCTCACAGATGTTAAAGTTCTTTCAGAATGGGGGATTCTTTTCC
tttccc CT-rich tract
ttataacta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaacaaaaagctacaagaagttggtttgtattctcggttataactacttggcgataacatttgtgtttttggtggtttcccagATACTTGGTTTCTTCTTTGCTGGTGTTGTACTCAACCAATTTGGTTTGATTAGAAATCTCACAGATGTTAAAGTTCTTTCAGAATGGGGGATTCTTTTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG