Sequence
atgc intronic sequence ATGC exonic sequence...gtctatcgccaacagactcaacattcatcgtctaattatataaaaataacctagagtgctcatgacatcatcgttttttaaagcgctgattttcttctagGTGAATACGCATCTCACCCCACGACCAATACTACTCACTCGGCATGGAGAAAGCATGGATAATGTTAGAGGCAGAATTGGAGGAGATAGCGTAATAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G07110.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA02G39390.1 (Glycine max), 3'ss of exon 15
---gtctatcgccaacagactcaacattcatcgtct-aattatataaaaataacctagagtgctcatgacatcatcgttttttaaagcgctgattttcttctagGTGAATACGCATCTCACCCCACGACCAATACTACTCACTCGGCATGGAGAAAGCATGGATAATGTTAGAGGCAGAATTGGAGGAGATAGCGTAATAAG
| |||| | || ||| || | | |||| |||| ||| | | | | || | | || | | | | | | ||| |||| |||| ||||| ||||| || ||||| |||||| |||| || |||||||||||||| | ||||||| |||||||||||||||||||| | | ||||
tgtgataatcgttttt-gttggaagattaataatgtgaattcagtaaatgcaactgcaaat-cacttgtaagcttc-tatggtgatttgtt-attatcttgcagGTTAATACACATCTTACACCACGCCCAATATTACTTACCCGGCATGGAGAAAGTCAGTATAATGTGAGAGGCAGAATTGGAGGAGACTCTGCATTAAG
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA18G06770.1 (Glycine max), 3'ss of exon 17
---------------gtctatcgccaacagactcaacattcatcgtctaattatataaaaataacctagagtgctcat---gacatcatcgttttttaaagcgctgattt---tcttctagGTGAATACGCATCTCACCCCACGACCAATACTACTCACTCGGCATGGAGAAAGCATGGATAATGTTAGAGGCAGAATTGGAGGAGATAGCGTAATAAG-
| | | | || | ||| || || ||| | |||| | || ||| | ||| | | | |||| | | |||| ||||| ||||| |||||||| ||||| |||| ||||| ||||| ||||| ||||||||| ||||||||||||||||| |||| | ||||||
gtaagtatttttgaaggatgtagttaaataccaaaacccatggatgctggaactaagctaattaactagtttttctatattgacccatacatttctatgaacctaaatttatgttctgcagGTAAATACACATCTTACCCCACGCCCAATTTTACTTACTCGACATGGGGAAAGTCAGGATAATGTGAGAGGCAGAATTGGAGGGGATACTGCAATAAGG
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA14G37520.1 (Glycine max), 3'ss of exon 26
gtctatcgccaacagactcaacattcatcgtcta--attatataaaaataacc-tagagtgctcatgacatcatcgttttttaaagcgctgattttcttctagGTGAATACGCATCTCACCCCACGACCAATACTACTCACTCGGCATGGAGAAAGCATGGATAATGTTAGAGGCAGAATTGGAGGAGATAGCGTAATAAG
| | || | | | | || ||| ||| |||| ||| | | || | | | | | | | | | ||| |||| |||| ||||| ||||| || ||||| |||||| |||| || |||||||||||||| | ||||||| |||||||||||||| ||||| | | ||||
ttggaagattaataatgtgatttgttattatcttgcattcagtaaatgcaactgcaaatcacttgtaagcttgta--tgagtgatttgtt-attatcttgcagGTTAATACACATCTTACACCACGCCCAATATTACTTACCCGGCATGGAGAAAGTCAGTATAATGTGAGAGGCAGAATTGGTGGAGACTCTGCATTAAG
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA11G27870.1 (Glycine max), 3'ss of exon 16
gtctatcgccaacagactcaacattcatcgtctaattatataaaaataacctagagtgctcatgacatcatcgttttttaaagcgctgattttct----tctagGTGAATACGCATCTCACCCCACGACCAATACTACTCACTCGGCATGGAGAAAGCATGGATAATGTTAGAGGCAGAATTGGAGGAGATAGCGTAATAAG
||| | | || | | || ||| | | | | || | | | |||| ||| || || | ||| | | |||| ||||| ||||| || ||||| ||||| |||| || || ||||| ||||| ||||||||| ||||||||||||||||| |||| | ||||||
---tatgcataggctttgtaccacttgtaacttatgaataaatagaaactttattctatttg-gttttcatacatttctatgaacctaaatttatgtgatgcagGTAAATACACATCTTACACCACGCCCAATTTTACTTACCCGACATGGGGAAAGTCAGGATAATGTGAGAGGCAGAATTGGAGGGGATACTGCAATAAG
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 15
-----gtctatcgccaacagactcaacattcatcgtctaattatataaaaataacctagagtgctcatg-acatcatcgttttttaaagcgctgattttcttctagGTGAATACGCATCTCACCCCACGACCAATACTACTCACTCGGCATGGAGAAAGCATGGATAATGTTAGAGGCAGAATTGGAGGAGATAGCGTAATAAG
|| | ||| | | | || || || | || | ||||| | | | | | | ||| | |||| | || || || |||| ||||| |||||||| || |||||||| |||| ||| |||||||||| || ||||||||||||||| |||||||| || || | | | ||||
acagggtgtcattataactaattttccttttctctgcttttcatttttaaatactattgctctttaacatagaacatgaactcttaa-----taatgtt-ttgcagGTTAATACACATCTCACACCCCGACCAATTTTACTTACTAGGCATGGAGAGAGTCGGGATAATGTTAGAGGTAGAATTGGGGGTGACACTGCATTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataacctagagtgctcatgacatcatcgttttttaaagcgctgattttcttctagGTGAATACGCATCTCACCCCACGACCAATACTACTCACTCGGCATGGAGAAAGCATGGATAATGTTAGAGGCAGAATTGGAGGAGATAGCGTAATAAG
ttttcttct CT-rich tract
ttttttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctatcgccaacagactcaacattcatcgtctaattatataaaaataacctagagtgctcatgacatcatcgttttttaaagcgctgattttcttctagGTGAATACGCATCTCACCCCACGACCAATACTACTCACTCGGCATGGAGAAAGCATGGATAATGTTAGAGGCAGAATTGGAGGAGATAGCGTAATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - cgccaac
- - - - - - - - ctcaaca
- - - - - - - - - - - - - - - - - - - - - aaaataa