Sequence
atgc intronic sequence ATGC exonic sequencegtatgttgcacattcccaaaaagcttatctacagaaatgcatttttgaatcattctttggtttttaaaatgattatctaatgggctggaattttcatgttttaaattgtctttcagGGACTGTTGTTGATACCAAAATCTGCCATCCAACAGAATTTGATTTTTATCTCTGCAGCCATGCTGGCATCCAG
Basic information
species | Glycine max |
transcript | GLYMA10G38770.1 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 18
gtatgttgcacattcccaaaaagcttatctacagaaatgcatttttgaatcattctttggtttttaaaatgattatctaatgggctggaatt-ttcatgttttaaattgtctttcagGGACTGTTGTTGATACCAAAATCTGCCATCCAACAGAATTTGATTTTTATCTCTGCAGCCATGCTGGCATCCAG
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------------tttcttgga---ttat-taaggtatcactttgggtgaactaacttttatatttactgttattcacttgatttctgtaattgctcatgtgtttg-ctaaaaaacagGAACTGTTGTTGATTCAAAGATCTGCCACCCATCAGAGTTTGATTTCTACCTCTGTAGCCATGCTGGAATTCAG
upper sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 19
lower sequence: AC189879.3_FGT003 (Zea mays), 3'ss of exon 17
gtatgttgcacattcccaaaaagcttatctacagaaatgcatttttgaatcattctttggtttttaaaatgattatctaatgggctg-gaattttcatgttttaaattgtctttcagGGACTGTTGTTGATACCAAAATCTGCCATCCAACAGAATTTGATTTTTATCTCTGCAGCCATGCTGGCATCCAG
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-----------actgttttgaggcacagtca---gatttttcttttgtttaaattgcattacattgaagtacttccccatgtttctatgactgctcacatgttgattgaaa---cagGAACTGTTGTTGATTCTAAGATATGCCACCCAACAGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
upper sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 16
gtatgttgcacattccc--aaaaagcttatctacagaaatgcatttttgaatcattctttggtttttaaaatgattatctaat--gggctggaattttcatgttttaaattgtctttcagGGACTGTTGTTGATACCAAAATCTGCCATCCAACAGAATTTGATTTTTATCTCTGCAGCCATGCTGGCATCCAG
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gtaaagtttttgtttcatggaaaaatacaatttttgctgtgtgcatatgtatggaaacatg-tcctcactggggttcctttttccagatttatctaaccatatttggttcttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAGMapped 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|19937592|gb|BQ081352.1|BQ081352EST: CAACTACAGGGACAGAAGCAGTACAGATCGGAGTGGGAATATATTGCCTG GGACTGTTGTTGATACCAAAATCTGCCATCCAACAGAATTTGATTTTTATC
genomic: CAACTACAGGGACAGAAGCAGTACAGATCGGAGTGGGAATATATTGCCTGgtatgttgca ... tgtctttcagGGACTGTTGTTGATACCAAAATCTGCCATCCAACAGAATTTGATTTTTATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttaaaatgattatctaatgggctggaattttcatgttttaaattgtctttcagGGACTGTTGTTGATACCAAAATCTGCCATCCAACAGAATTTGATTTTTATCTCTGCAGCCATGCTGGCATCCAG
atctaat putative branch site (score: 3)
ttgtctttc putative PPT
aattttcatgttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttgcacattcccaaaaagcttatctacagaaatgcatttttgaatcattctttggtttttaaaatgattatctaatgggctggaattttcatgttttaaattgtctttcagGGACTGTTGTTGATACCAAAATCTGCCATCCAACAGAATTTGATTTTTATCTCTGCAGCCATGCTGGCATCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG