Sequence
atgc intronic sequence ATGC exonic sequenceGTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGGCATATTTGTCTAGgtatgtcactgtgtcctctgttttctgataccttcttactcttttgttggttattatctatcactttctttacttgctggtcatactatgtggtccgaat...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G75440.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G75440.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os03g47770.1 (Oryza sativa), 5'ss of exon 4
GTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGGCATATTTGTCTAGgtatg-tcactgtgtcctctgttttctgataccttcttactcttttgttggttattatctatcactttctttactt-gctggtcatactatgtggtccgaat---
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GTCATATTTCTTCATCCAGCGCCAATGCATCCGCACATTTACAGCAATGGGCATATCTGTTTAGgtaaaatgattgtatgctcc---tattgatgcataaataattgttgttt--tcgttcttgatgcttttgcccactccattaattctcttgggtgtacagcatttt
upper sequence: AT1G75440.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G116840_T06 (Zea mays), 5'ss of exon 2
GTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGGCATATTTGTCTAGgtatgtcactgtgtcctctgttttctgataccttcttactcttttgttggttattatctat-cactttc-tttacttgctggtcatactatgtggtccgaat--
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GTTATATTTCTGCATCCAGCACCGATGCATCCACACATTTACAGCAATGGACACATCTGTTTAGgtat-tcactgtttccact--tattgaccaactcttgtgttttaagttaaccagcactaatgcagtttcgtccatgagctggtcaccat-tgttgtctactctg
upper sequence: AT1G75440.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv18s0001g13180.t01 (Vitis vinifera), 5'ss of exon 4
GTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGGCATATTTGTCTAGgtatgtcactgtgtcctctgttttctgataccttcttactctt-ttgttggttattatctatc-actttctttacttgctggtcatactatgtggtccgaat
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GTTGTTTTTGTCCCGCCAGCTCCTCTGCATCCTCACATATACAGCAATGGGCATATCTGTTTAGgtaattccataattccagcacatgtttatagattttgtttctgattggacatgaattcatgtctgttttaattatttcatgatgattttatgtgattctg--Mapped 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|86078444|gb|DR374201.1|DR374201EST: TCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGGCATATTTGTCTAG ATATTTTGTATGATTCGTGGTCTCCAGCCATGACGGTGAGTTCTATCTGCA
genomic: TCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGGCATATTTGTCTAGgtatgtcact ... atcgttgcagATATTTTGTATGATTCGTGGTCTCCAGCCATGACGGTGAGTTCTATCTGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGGCATATTTGTCTAGgtatgtcactgtgtcctctgttttctgataccttcttactcttttgttggttattatctatcactttctttacttgctggtcatactatgtggtccgaat
- - - - - - - - CAGCTC
- - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcttactc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctttcttt