Sequence
atgc intronic sequence ATGC exonic sequencegtgaacaccccctttgccagtttatatttcattgattgaatgtgtctttctgtcaatagttaattcatatggtctttatttgtcacttgtcagGGTCACTTGTATATCATTGATGTTTCTCAAGCTGTTGATCCTGAACATCCTCATGCCCTTGATTTTCTGCGTGAAGATTGTGTTCATGTATCT
Basic information
species | Glycine max |
transcript | GLYMA09G39750.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os07g06820.1 (Oryza sativa), 3'ss of exon 8
gtgaacaccccctttgccagtttatatttcattgattgaatgtgtctttctgtcaatagttaattcatatggtctttatttgtcacttgtcagGGTCACTTGTATATCATTGATGTTTCTCAAGCTGTTGATCCTGAACATCCTCATGCCCTTGATTTTCTGCGTGAAGATTGTGTTCATGTATCT
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gtagttgaactctgt-ttattatattttttaac-atcattttttttttcagatcaatggctctgattcccaccatttattctccttgtg-cagGGACACTTGTATATCATTGATGTTTCGCAGTCCGTTGACCTTGATCATCCTTCAGCGTTGGAATTCTTGAAGGAAGATTGCTTGCATGTTACT
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 8
gtgaacaccccctttgccagtttatatttcattgattgaatgtgtctttctgtcaatagttaattcatatggtctttatttgtcacttgtcagGGTCACTTGTATATCATTGATGTTTCTCAAGCTGTTGATCCTGAACATCCTCATGCCCTTGATTTTCTGCGTGAAGATTGTGTTCATGTATCT
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--gtatgcatttatcgttt-ttcacattgaactgactacacatgtattatggacaatcatt------tataatctttcctc-ctatttgacagGGCCACTTACATGTTATTGATGTTTCTCAAGCAGTTGATCTTGACCATCCTCATGCCCTTGACTTTCTACGTGAAGATTGTGTCCATGTTTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgtgtctttctgtcaatagttaattcatatggtctttatttgtcacttgtcagGGTCACTTGTATATCATTGATGTTTCTCAAGCTGTTGATCCTGAACATCCTCATGCCCTTGATTTTCTGCGTGAAGATTGTGTTCATGTATCT
agttaat putative branch site (score: 4)
aatagttaattcatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaacaccccctttgccagtttatatttcattgattgaatgtgtctttctgtcaatagttaattcatatggtctttatttgtcacttgtcagGGTCACTTGTATATCATTGATGTTTCTCAAGCTGTTGATCCTGAACATCCTCATGCCCTTGATTTTCTGCGTGAAGATTGTGTTCATGTATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA