Sequence
atgc intronic sequence ATGC exonic sequencegttgttatctcgttgtcttgttctctatgtggtttgttgttcttctttggtgattcattttgtgattcctttttggtagCTATTGAGTTCCATATGCCTCCAATTTGTTCTCCGACTGTTCGTCCTGGAAGACCAGCCGAAGCTGCTCCCGTTATTTCAAAGCGTTTGTCTGATACTAT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G60080.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G60080.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA14G22250.2 (Glycine max), 3'ss of exon 4
-----------gttgttatctcgttgtcttgttctctatgtggt-ttgttgttcttctttggtg--attcattttgtgattcctttt-tggtagCTATTGAGTTCCATATGCCTCCAATTTGTTCTCCGACTGTTCGTCCTGGAAGACCAGCCGAAGCTGCTCCCGTTATTTCAAAGCGTTTGTCTGATACTAT
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gttggctatcactcaatgtgccacttaattgttagttattaagtctttttgctcactggccataaaattaacatgttaatatctgttatttcagCTATTGATTTCCACATGCCTCCAATTTGTTCTCCGATTGTTAGGCCTGGCAGGCCTGCTGAAGCATCACCGGTGGTATCAAAGCAGTTGTCTGACACCAT
upper sequence: AT1G60080.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G50270.1 (Glycine max), 3'ss of exon 3
gtt-gttatctcgttgtcttgttctctatgtggtttgttgttcttctttggtgattcattttgtgattcctttttggtagCTATTGAGTTCCATATGCCTCCAATTTGTTCTCCGACTGTTCGTCCTGGAAGACCAGCCGAAGCTGCTCCCGTTATTTCAAAGCGTTTGTCTGATACTAT
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gttagttatttagtcttctgctcacatatgccataaaattaactaacatgttaata---tttgttatttc--------agCTATTGATTTCCACATGCCTCCAATTTGTTCTCCAATCGTTAGGCCTGGCAGACCAGCTGAAGCATCACCGATGGTGTCAAAGCAGTTGTCTAACACCAT
upper sequence: AT1G60080.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G27080.1 (Glycine max), 3'ss of exon 4
-----------gttgttatctcgttgtcttgttctctatgtggtttgttgttcttctttg----gtgattcattttgtgat-tcctttttggtagCTATTGAGTTCCATATGCCTCCAATTTGTTCTCCGACTGTTCGTCCTGGAAGACCAGCCGAAGCTGCTCCCGTTATTTCAAAGCGTTTGTCTGATACTAT
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gttagcttttacttgctgggctacttatgtgttagttattaaatcttctgctcgcatatgccatgaaattaacttcttaatatctattatttcagCTATTGATTTCCACATGCCTCCAATTTGTTCTCCAATAGTTAGGCCTGGCAGGCCAGCTGAAGCATCACCGGTGGTGTCAAAGCAGTTGTCTGACACCATMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|19875055|gb|AU235886.1|AU235886EST: AATGGAAGTTATGACTCCTTCTACGGACTCTCCANACGAAGGATGCATAG CTATTGAGTTCCATATGCCTCCAATTTGTTCTCCGACTGTTCGTCCTGGAA
genomic: AATGGAAGTTATGACTCCTTCTACGGACTCTCCAGACGAAGGATGCATAGgttgttatct ... tttttggtagCTATTGAGTTCCATATGCCTCCAATTTGTTCTCCGACTGTTCGTCCTGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctatgtggtttgttgttcttctttggtgattcattttgtgattcctttttggtagCTATTGAGTTCCATATGCCTCCAATTTGTTCTCCGACTGTTCGTCCTGGAAGACCAGCCGAAGCTGCTCCCGTTATTTCAAAGCGTTTGTCTGATACTAT
ttccttttt CT-rich tract
attcatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgttatctcgttgtcttgttctctatgtggtttgttgttcttctttggtgattcattttgtgattcctttttggtagCTATTGAGTTCCATATGCCTCCAATTTGTTCTCCGACTGTTCGTCCTGGAAGACCAGCCGAAGCTGCTCCCGTTATTTCAAAGCGTTTGTCTGATACTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT