Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgaagggggccaagcgacttgcgtaatttctattgtatgcagacattcaaaataaattttactagttacgttgtctaatagcattctctaacaagtattttaaattttggtagAACATTATCTACCAGTGGCTCCTTGGGACATTCCTATTCTGGTTTGTTCTGGCTATCTACTTTGACAATATTATTCCCAACGCCTCCGGTGTAAGAAAAC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G61690.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G61690.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G20360.2 (Glycine max), 3'ss of exon 6
--------------------------------------------gtatgtgaagggggcca--agcgacttgcg-----taatttctattgtatgcagacattcaaaataaattttactagttacgttgtct-aatagcatt-ctctaaca------agtattttaaatt------ttggtagAACATTATCTACCAGTGGCTCCTTGGGACATTCCTATTCTGGTTTGTTCTGGCTATCTACTTTGACAATATTATTCCCAACGCCTCCGGTGTAAGAAAAC
|| | ||| | | | ||| || ||||| || | | ||| | | | | | | || | | | || || |||| |||||||| | ||| || | || || | ||||| | || ||| | |||||||||||||||| || |||||||||||||| || || || || || ||||| || |||
gtatgcaatcatttgacctctaaatccctacttcatacaccacttcattttaagaagccttttggttgcttttaccttttactttctgttccttagttatatttgctttgattcctcccttcccttcagccttagttgtgttactgcaacagtactcagtattttgtttcttttcattgacagGATGACATTTATAAATGGCTTGCGGCTACTTTCTTTCTCTGGTTTGTTCTGGCCATTTACTTTGACAATATAATCCCAAATGCATCAGGTGTGAGGAAAT
upper sequence: AT5G61690.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G34140.2 (Glycine max), 3'ss of exon 6
----------------------------------------------gtatgtgaagggggccaagcgacttgcgtaatttctattgtatgcagacattcaaaataaattttactagttac----------------gttgtctaatagcattctctaacaagtattttaaatt---ttggtagAACATTATCTACCAGTGGCTCCTTGGGACATTCCTATTCTGGTTTGTTCTGGCTATCTACTTTGACAATATTATTCCCAACGCCTCCGGTGTAAGAAAAC
| | | | | | ||| ||| || | | | ||| |||| ||| | | | ||||| | | ||| | || | | |||| || ||| || | || || | ||||| | |||||| | |||||||||||||||| || |||||||||||||| || || || || || ||||| || |||
gtatgcaatgatttgacctctaaatccctactccataaaccacttcttttttagaagccttttggttgcttttcccttttactttttgttccatagttctaaatttgctttgattcctcccttctgttcagccttagttgtgttactgcagttactcagtgttttttttcttttcattgacagGATGACATTTATAAATGGCTTGCAGCTACATTCTTTCTCTGGTTTGTTCTGGCCATTTACTTTGACAATATAATCCCAAATGCATCGGGTGTGAGGAAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactagttacgttgtctaatagcattctctaacaagtattttaaattttggtagAACATTATCTACCAGTGGCTCCTTGGGACATTCCTATTCTGGTTTGTTCTGGCTATCTACTTTGACAATATTATTCCCAACGCCTCCGGTGTAAGAAAAC
ctctaac putative branch site (score: 2)
tctaacaagtatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgaagggggccaagcgacttgcgtaatttctattgtatgcagacattcaaaataaattttactagttacgttgtctaatagcattctctaacaagtattttaaattttggtagAACATTATCTACCAGTGGCTCCTTGGGACATTCCTATTCTGGTTTGTTCTGGCTATCTACTTTGACAATATTATTCCCAACGCCTCCGGTGTAAGAAAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA