Sequence
atgc intronic sequence ATGC exonic sequencegtatgaaattcaggctttgtcttggaggttgcaatcgaaaatttcactaattgctgaacgttttttgtttctctttcaagcttagcatcataaatttatgttttcttgttgtgtttgtgtatgtgtgtttttgcttagGATGGAAGAGAAGAAGTGATCCAGGCATGGTATATGGATGATAGCGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAGGAGTTTCTATCTTTGG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14710.5 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14710.5 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os10g28350.1 (Oryza sativa), 3'ss of exon 1
gtatgaaattcaggctttgtcttggaggttgcaatcgaaaatttcactaattgctgaacgttttttgtttct--ctttcaagcttagcatcataaatttatgttttcttgttgtgtttgtgtatgtgtgtttttgcttagGATGGAAGAGAAGAAGTGATCCAGGCATGGTATATGGATGATAGCGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAGGAGTTTCTATCTTTGG
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-----------------------------------cagacaatttattgtaagtacatcatttgtggtgtgcggtgtttaagttctg----gtaatcttgttgattgttgtactgttctttt-tccccccaaaaaaaaagGATGGTAAGACGGAGGTGATAGAAGCATGGTACATGGATGATAGCGAAGAGGACCAGAGGCTTCCTCATCACCGCGAACCCAAAGAATTCATTCATGTTG
upper sequence: AT4G14710.5 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G38940.3 (Glycine max), 3'ss of exon 1
gtatgaaattcaggctttgtcttggaggttgcaatcgaaaatttcactaattgct-gaacgttttttg--tttctctttcaagcttagcatcataaatttatgttttcttgttgtgtttgtgtatgtgtgtttttgcttagGATGGAAGAGAAGAAGTGATCCAGGCATGGTATATGGATGATAGCGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAGGAGTTTCTATCTTTGG
|| | ||| | | ||| | || || || || | | || | | | | || || || | || | | ||||| | |||||| | |||| ||||| | || |||||||| ||||||||||| || || ||||| ||||| || |||||||| || || ||||||||| | || ||||
-----------------------------------------ctttttcagttgtttagaggttatatgaattcttcattaagaaatcccaagaaataagaggatcttattttttttttaatcaaacgtcattttttcatagGATCCACGAGAGGAAGTCCTTCAAGCATGGTACATGGATGATAGTGATGAAGATCAAAGACTCCCCCACCACAAAGAACCCAAGGAGTTTGTCTCGTTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcatcataaatttatgttttcttgttgtgtttgtgtatgtgtgtttttgcttagGATGGAAGAGAAGAAGTGATCCAGGCATGGTATATGGATGATAGCGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAGGAGTTTCTATCTTTGG
tttttgctt CT-rich tract
ataaatttatgttttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaaattcaggctttgtcttggaggttgcaatcgaaaatttcactaattgctgaacgttttttgtttctctttcaagcttagcatcataaatttatgttttcttgttgtgtttgtgtatgtgtgtttttgcttagGATGGAAGAGAAGAAGTGATCCAGGCATGGTATATGGATGATAGCGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAGGAGTTTCTATCTTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG