Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatcttttcagggcatgcatatagtctcgcaagaacttctcctggctgaagttaatcaactaatgttgcagGCATTTGGTAGAACTCCTCTTATTAGCATTAGTCCAAAGAAGACATGGGAAGGAGCTTTTGCAGGACTTGTTGGTTGTATTTCCATTACCATTTTACTCT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G60620.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G60620.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G06190.1 (Glycine max), 3'ss of exon 4
---------------gtatgtatcttttcagggcatgcatatagtc--tcgcaagaacttctcctggctgaagttaat-caactaatgtt-----gcagGCATTTGGTAGAACTCCTCTTATTAGCATTAGTCCAAAGAAGACATGGGAAGGAGCTTTTGCAGGACTTGTTGGTTGTATTTCCATTACCATTTTACTCT-
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ttattagtttttcttgacttcacattcaaacagtttctttgttatccgttccaaaaatacacccttaatccagcaatttctttttgtattttcatgcaggCATTTGGTAGAACACCACTTACCAGTATAAGTCCAAAGAAGACATGGGAGGGTACTATTATAGGCTTTTGTGGGTGTATAGTTACTTCTGCTGTTCTGTC
upper sequence: AT3G60620.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA11G30030.3 (Glycine max), 3'ss of exon 5
----------------------gtatgtatcttttcagggcatgcatatagtctcgcaagaacttctcctggctgaagttaatcaactaatgt--tgcagGCATTTGGTAGAACTCCTCTTATTAGCATTAGTCCAAAGAAGACATGGGAAGGAGCTTTTGCAGGACTTGTTGGTTGTATTTCCATTACCATTTTACTCT
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tcttgacttcacattcaagcagttactttgttatctgttccaaaaatacacccttaatttggccttcagttatgaaatttctttttgtactttcatgcagGCATTTGGTAGAACACCACTTACCAGCGTAAGTCCAAAGAAGACATGGGAGGGTACTATTATAGGCTTTTGTGGGTGTATAATTACTTCTGTTGTACTGT
upper sequence: AT3G60620.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv15s0048g00240.t01 (Vitis vinifera), 3'ss of exon 4
---------------gtatgtatcttttcagggcatgcatatagtctcgcaagaacttctcct--------ggctgaagttaatcaacta-atgttgcagGCATTTGGTAGAACTCCTCTTATTAGCATTAGTCCAAAGAAGACATGGGAAGGAGCTTTTGCAGGACTTGTTGGTTGTATTTCCATTACCATTTTACTCT
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attctttatgccattattagaacttaacttggatgacttcttaaattcataatgttctctttaccaacatgaactgagattattttgttttgtaatgcagGCATTTGGTCGAACACCACTCACCAATATTAGTCCAAAGAAGACATGGGAGGGAGTTATTGCAGGCTTAGGTGGTTGTATAGCCACTTCTGTTATATTGTMapped 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|125292603|gb|EL306688.1|EL306688EST: ACACGTTTGCTTTTTCTTGGTGGCAAG GCATTTGGTAGAACTCCTCTTATTAGCATTAGTCCAAAGAAGACATGGGAA
genomic: ACACGTTTGC-TTTTCTTGGTGGCAAGgtatgtatct ... aatgttgcagGCATTTGGTAGAACTCCTCTTATTAGCATTAGTCCAAAGAAGACATGGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatatagtctcgcaagaacttctcctggctgaagttaatcaactaatgttgcagGCATTTGGTAGAACTCCTCTTATTAGCATTAGTCCAAAGAAGACATGGGAAGGAGCTTTTGCAGGACTTGTTGGTTGTATTTCCATTACCATTTTACTCT
aactaat putative branch site (score: 2)
aagttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatcttttcagggcatgcatatagtctcgcaagaacttctcctggctgaagttaatcaactaatgttgcagGCATTTGGTAGAACTCCTCTTATTAGCATTAGTCCAAAGAAGACATGGGAAGGAGCTTTTGCAGGACTTGTTGGTTGTATTTCCATTACCATTTTACTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT