Sequence
atgc intronic sequence ATGC exonic sequencegttcgtatattctcaactatcttcagttcacataattgagatttcctagctgtgacaattgcccaaaagtctcataattaacattctcattctcatattaaatgggttgtttcttggtattcagGGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATC
Basic information
species | Arabidopsis thaliana |
transcript | AT4G32120.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G32120.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G000393_T02 (Zea mays), 3'ss of exon 7
---gttcgtatattctcaactatcttcagttcacataattgagatttcctagctgtgacaattgcccaaaagtctcataattaacattctcattctcatattaaatgggttgtttcttggtattcagGGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATC
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ttttattgcatttttttgtctatgcagaattt---tattttggatttc-----tatgcctcttgtt----agtc----aactatcaaagtgattttgacttcaa----------tatcaat-ttcagGGGCCAACAATGGTATGAACCTGAGTGGTGGAAATTTGGAGATTCAAAAAC
upper sequence: AT4G32120.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA14G14000.1 (Glycine max), 3'ss of exon 8
gttcgtatattctcaactatcttcagttcacataattgagatttcctagctgtgacaattgcc-caaaagtctcataattaacattctcattctcatattaaatgggttgtttcttggtattcagGGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATC
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--------------aaagttcattattatatttttctataaactttcacatgttgaacttggggttgaggttttggattcaac----taatagccatcttatttggagtgttt-------ttcagGGGAAAGCCATGGTATGAACCTGATTGGTGGAAATTTGGGGATGAAAAATC
upper sequence: AT4G32120.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: PP1S101_254V6.1 (Physcomitrella patens), 3'ss of exon 7
gttcgtatattctcaactatcttcagttcacataattgagatttcctagctgtgacaattgcccaaaagtctcataattaacattctcattctcatattaaatgggttgtttcttggtattcagGGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATC---
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--------ctatacgtcaatcttgagtggacaa---tcagaagcctta----tgacgttttctgcacttgcgtgatattaagagg---------acacttaatttttctgtcattgtgatgtagGAATGCTCAATGGTATGAGCCTGACTGGTGGAAGTTTGGAGAGCAAAAGTCAGAMapped 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|86087448|gb|DR383207.1|DR383207EST: GATGGTGCTTACATTGGGGGCATGAAATCTGGAGATGTGATTTCTGAAGA GGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATG
genomic: GATGGTGCTTACATTGGGTGCATGAAATCTGGAGATGTGATTACTGAAGAgttcgtatat ... tggtattcagGGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcataattaacattctcattctcatattaaatgggttgtttcttggtattcagGGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATC
aattaac putative branch site (score: 2)
ttgtttctt putative PPT
attctcatattaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcgtatattctcaactatcttcagttcacataattgagatttcctagctgtgacaattgcccaaaagtctcataattaacattctcattctcatattaaatgggttgtttcttggtattcagGGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA