Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtaacatgcttgccttgtcttgctcaatgtatctaaccagctctttatttgtctcatttcgcaccaaaaatctcttattttacagTGATAGAGTAGCAATTGGTCGTTCCCTAGATCTTCCAGTTTATTTTGGAGACGCTGGTAGTAGAGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G00630.2 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 15
---------gtaatgtaacatgct-tgccttgtcttgc-tcaatgtatctaaccagctctttatttgtctcatttcgcaccaaaaatctcttattttacagTGATAGAGTAGCAATTGGTCGTTCCCTAGATCTTCCAGTTTATTTTGGAGACGCTGGTAGTAGAGAG
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ttctccgaagatgtgtgaactaccatatatcattttacatttttgcatatgaacatcagaagatg-gcctaacctgtcttcatatttctcaatgtcttcagTGATAGAGTGGCAATTGGGCGTTCCCTAGATCTCCCTGTGTACTTTGGAGATGCTGGTAGTCGAGAG
upper sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA18G46420.1 (Glycine max), 3'ss of exon 23
---------------gtaatgtaacatgct-tgccttgtcttgctcaatgtatctaaccagctctttatttgtctcatttcgcaccaaaaatctcttattttacagTGATAGAGTAGCAATTGGTCGTTCCCTAGATCTTCCAGTTTATTTTGGAGACGCTGGTAGTAGAGAG-
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tgcttcaagatatgtgtgaaatactatgttatgtgcagttttggacaggatacagagatgaca----aactaacttgttttcc--taattttctaatatctt-cagtGATAGAGTGGCAGTTGGGCGTGCTCTGGATCTCCCTGTGTACTTTGGAGATGCTGGTAGTAGAGAGG
upper sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 14
----------gtaatgtaacatgcttgccttgtcttgctcaatgtatctaaccagctctt-tatttgtctcatttcgcaccaaaaatctcttattttacagTGATAGAGTAGCAATTGGTCGTTCCCTAGATCTTCCAGTTTATTTTGGAGACGCTGGTAGTAGAGAG
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gatggccttaagaatgtttcatatttgtgtagtattgatgagtaggcatattctgcactagcacccagtttagtt-acattaccattcctgttcatttcagTGATCGAGTTGCAATGGGGCGTGCCCTCGACCTTCCTGTTTATTTTGGAGATGCTGGTAGTCGAGAGMapped 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|124909825|gb|EH983905.1|EH983905EST: CTTTCTGAAAGACTTATCCCATTTGTTGCCCTCGATGTCAGCAG TGATAGAGTAGCAATTGGTCGTTCCCTAGATCTTCCAGTTTATTTTGGAGA
genomic: CTTTCTGAAAGACTTATCCCATTTGTTGCCCTCGATGTCAGCAGgtaatgtaac ... tattttacagTGATAGAGTAGCAATTGGTCGTTCCCTAGATCTTCCAGTTTATTTTGGAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctaaccagctctttatttgtctcatttcgcaccaaaaatctcttattttacagTGATAGAGTAGCAATTGGTCGTTCCCTAGATCTTCCAGTTTATTTTGGAGACGCTGGTAGTAGAGAG
atctaac putative branch site (score: 2)
tctcttatttt putative PPT
aaaaatctcttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtaacatgcttgccttgtcttgctcaatgtatctaaccagctctttatttgtctcatttcgcaccaaaaatctcttattttacagTGATAGAGTAGCAATTGGTCGTTCCCTAGATCTTCCAGTTTATTTTGGAGACGCTGGTAGTAGAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA