Sequence
atgc intronic sequence ATGC exonic sequencegtagtgcgattggttacaagatccatttctaggtcaactttgatttacttacccatatgtaacaactgtatttttcattcctgatcacagGTTGAATCTGAACGCGCCTACCATCAAAGAGTCCTCCAAATACTTGATCAGCTCGAAGGAGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G34660.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G34660.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA06G01120.3 (Glycine max), 3'ss of exon 6
--------------------------gtagtgcgattggttacaagatccatttctaggtcaactttgatttacttacccatatgtaacaactgtatttttcattcctgatcacagGTTGAATCTGAACGCGCCTACCATCAAAGAGTCCTCCAAATACTTGATCAGCTCGAAGGAGAG
| | | | ||| || || ||| || | | ||| |||| | | | | || | || | | ||| ||||||||| | || || ||||| ||||||||||| |||||||||||||||||||| || ||||||
gtattacagttttaccatatgattctgcaattcttttgttttaaaatcttggatctgagttatcagaaattattactcccacttaaatccagcgtgctatt--tctattatc-cagGTTGAAGCAGAGCGTGCCTATCATCAAAGAGTACTCCAAATACTTGATCAGCTTGAGGGAGAG
upper sequence: AT4G34660.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA04G01100.2 (Glycine max), 3'ss of exon 6
--------------------------gtagtgcgattggttacaagatccatttctaggtcaactttgatttacttacccatatgtaacaactgtatttttcattcctgatcacagGTTGAATCTGAACGCGCCTACCATCAAAGAGTCCTCCAAATACTTGATCAGCTCGAAGGAGAG
| | | | ||| || || ||| || | | ||| ||| | | ||| | | | | | | || ||||||||| | || | ||||| ||||||||||| |||||||||||||||||||| || ||||||
gtattactgtttaaccatatgattctgcaattcttttgttttaaaatcttggatctgagttatcagaaatta--ttattcccacttaattccagcgtgctatttctattat-gcagGTTGAAGCAGAGCATGCCTATCATCAAAGAGTACTCCAAATACTTGATCAGCTTGAGGGAGAG
upper sequence: AT4G34660.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA12G04210.1 (Glycine max), 3'ss of exon 6
-----gtagtg----cgattggttacaagatccatt--tctaggtcaactttgatt--------tacttacccata---tgtaac-aactgtatttttcattcctgatcac--agGTTGAATCTGAACGCGCCTACCATCAAAGAGTCCTCCAAATACTTGATCAGCTCGAAGGAGAG
| ||| ||| | || || | | | || ||| ||| || || | |||| ||||| || | ||| | || | | |||||||| |||| || ||||| ||||||| |||||| ||||||||||||||||| || |||||
gtattgcagttttcccgaacgattctgcaattcttcaatttaatgaaaccttggttcagagtaataacaaatcataacttgtaattaatcccacattttggttctacttatgaagGTTGAAGCTGAGCGTGCCTATCATCAAATAGTCCTACAAATACTTGATCAGCTTGAGGGAGAA
upper sequence: AT4G34660.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA11G11950.2 (Glycine max), 3'ss of exon 6
-----------------------------gtagtgcgattggttacaagatccatt-tctaggtcaactttgatttacttacccatatgtaacaactgtatttttcattcctgatcacagGTTGAATCTGAACGCGCCTACCATCAAAGAGTCCTCCAAATACTTGATCAGCTCGAAGGAGAG-------------------------------------
| | | ||| | || | || | || || || | | | || || ||| | | ||| | | || || | |||||||| | || || |||| ||||||| |||||| ||||||||||||||||| || ||||||
gtattgcagtttgcccttatgattctgcaattcttcaatttaatgaaaccttggttcttcagagtaataacgaatca-taacttctaattaataccacattttgtttctacttatga-agGTTGAAGCAGAGCGTTCCTATCATCAAATAGTCCTACAAATACTTGATCAGCTTGAGGGAGAGGTAAGTATTCATATCACGTGGTCATTTTACCATTTAT
upper sequence: AT4G34660.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA11G11950.3 (Glycine max), 3'ss of exon 6
-----------------------------gtagtgcgattggttacaagatccatt-tctaggtcaactttgatttacttacccatatgtaacaactgtatttttcattcctgatcacagGTTGAATCTGAACGCGCCTACCATCAAAGAGTCCTCCAAATACTTGATCAGCTCGAAGGAGAG
| | | ||| | || | || | || || || | | | || || ||| | | ||| | | || || | |||||||| | || || |||| ||||||| |||||| ||||||||||||||||| || ||||||
gtattgcagtttgcccttatgattctgcaattcttcaatttaatgaaaccttggttcttcagagtaataacgaatca-taacttctaattaataccacattttgtttctacttatga-agGTTGAAGCAGAGCGTTCCTATCATCAAATAGTCCTACAAATACTTGATCAGCTTGAGGGAGAG
upper sequence: AT4G34660.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv03s0038g00460.t01 (Vitis vinifera), 3'ss of exon 6
---------------------gtagtgcgattggttacaagatccatttctaggtcaactttgatttacttacccatatgta-acaactgtatt-tttcattcctgatc-acagGTTGAATCTGAACGCGCCTACCATCAAAGAGTCCTCCAAATACTTGATCAGCTCGAAGGAGAG
|| || || | || || || | ||| || | | | | |||| | | | | | ||| | ||| | |||||||||| |||||||| || || ||||||||||| ||||||||||| | || ||| |||
gtaatgcaattcccccctgatctaacatagttc-ctatataatgcaatttctgatcatattaggaatcatgattcataaatttatggttttgtcattttgcttctgttttgaagGTTGAATCCGAACGCGCTTATCACCAAAGAGTCCTTCAAATACTTGAGCTACTTGAAACTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactttgatttacttacccatatgtaacaactgtatttttcattcctgatcacagGTTGAATCTGAACGCGCCTACCATCAAAGAGTCCTCCAAATACTTGATCAGCTCGAAGGAGAG
tatttttcattcct CT-rich tract
tatttttcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtgcgattggttacaagatccatttctaggtcaactttgatttacttacccatatgtaacaactgtatttttcattcctgatcacagGTTGAATCTGAACGCGCCTACCATCAAAGAGTCCTCCAAATACTTGATCAGCTCGAAGGAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA