Sequence
atgc intronic sequence ATGC exonic sequence...taccttctcagttaatttgttatcacttataagtgtctggccattgtttaagttctgttctggtgttggtagtaaaattgatatgttgtttaatgtgcagGTCTATCCTGAAGGAACTCACTTCATAATTCCGTGGTTTGAGAAGCCGGTTATCTATGATGTCCGTGCATGACCCCATCTAGTTCTAGTTGAGAGTACAT
Basic information
species | Glycine max |
transcript | GLYMA13G36940.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G36940.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g62490.1 (Oryza sativa), 3'ss of exon 1
---------------taccttctcagttaatttgttat----cacttataagtgtctg----gccat-----tgtttaagttctgttctggtgttggtagtaaaattgatat-----gttgtttaat--gtgcagGTCTATCCTGAAGGAACTCACTTCATAATTCCGTGGTTTGAGAAGCCGGTTATCTATGATGTCCGTGCATGACCCCATCTAGTTCTAGTTGAGAGTACAT------
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gtaacccatcgatcgaagcctactagtgaacttgtgatgtgatgccgatgggtttcagagaagctatgcgtgtgcttgtgatttggtgggttgcgtttgaatgaattgttgtggttggttgtgtgctcggtgcagGTGTACCCTGAGGGGACTCACTTCATGATCCCGTGGTTCGAGAGGCCGATCATCTACGATGTCCGAGCCCGCCCCAACCTCGTC------GAGAGCACTTCTGGAA
upper sequence: GLYMA13G36940.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0048g02350.t01 (Vitis vinifera), 3'ss of exon 3
taccttctcagttaatttgttatcacttata-agtgtctggccattgtttaagttctgttctggtgttggtagtaaaattgatatgttgttt---aatgtgcagGTCTATCCTGAAGGAACTCACTTCATAATTCCGTGGTTTGAGAAGCCGGTTATCTATGATGTCCGTGCATGACCCCATCTAGTTCTAGTTGAGAGTACAT------
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----ttttcttttcctgcatcactaattctgtaatttctgtttttcctgttgtttgtcattcaccgtaactcattagaacatcatactttcatgggatatgcagGTTTATCCTGAGGGGACTCACCTGATGATCCCATGGTTTGAAAGGCCAGTTATCTATGATGTCCGTGCACGCCCTCATCTG------GTGGAGAGTACTTCAGGGAMapped 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|192307653|gb|FG999692.1|FG999692EST: GTTGAAGGAGGTCACCGAGCCATTGTTTTCAACTTGGTGTCAAAGACAAG GTCTATCCTGAAGGAACTCACTTCATAATTCCGTGGTTTGAGAAGCCGGTT
genomic: GTTGAAGGAGGTCACCGAGCCATTGTTTTCAACTTGGTGTCAAAGACAAGgttattatat ... taatgtgcagGTCTATCCTGAAGGAACTCACTTCATAATTCCGTGGTTTGAGAAGCCGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttaagttctgttctggtgttggtagtaaaattgatatgttgtttaatgtgcagGTCTATCCTGAAGGAACTCACTTCATAATTCCGTGGTTTGAGAAGCCGGTTATCTATGATGTCCGTGCATGACCCCATCTAGTTCTAGTTGAGAGTACAT
gtttaat putative branch site (score: 4)
taaaattgatatgttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taccttctcagttaatttgttatcacttataagtgtctggccattgtttaagttctgttctggtgttggtagtaaaattgatatgttgtttaatgtgcagGTCTATCCTGAAGGAACTCACTTCATAATTCCGTGGTTTGAGAAGCCGGTTATCTATGATGTCCGTGCATGACCCCATCTAGTTCTAGTTGAGAGTACAT
- ccttctc
- - - - - - - - - - - - - - - - - - ctggcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatatg