Sequence
atgc intronic sequence ATGC exonic sequencegtatttgttgtgacttgtaaagtgtggtatttaatttttatgattctcattggagtgtatttcaaatctttctacgctgatatcaaacatgaatttcttatgttatccttcttgctatagGTGAATCCAGGAAATGCTCCTCTAGTTGTTGGACAATTATTAGATGATGAATGCCCTGAAGATTTCATTAAAGGTCTTATACTTTCAGTTCGTTCTCTTC
Basic information
species | Glycine max |
transcript | GLYMA14G37510.1 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 21
gtatttgttgtgacttgtaaagtgtggtatttaatttttatgattc----tcattggagtgtatttcaaatctttctacgctgatatcaaacatgaatttcttatgttatccttcttgctatagGTGAATCCAGGAAATGCTCCTCTAGTTGTTGGACAATTATTAGATGATGAATGCCCTGAAGATTTCATTAAAGGTCTTATACTTTCAGTTCGTTCTCTTC
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--------------------------gtatgcaactcttccaattcagtgttattggagtatcatc---attctcatgtgct-atgt---atttaaatgctt---attttcctttatattgtagGTGAACCCTGGAAATGCTCCATTAGTTGTTGGACAGCTACTTGATGATGAGTGCCCTGAAGATTTCATTAAGGGTTTGATTCTGTCTGTCCGTTCTCTCC
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 21
gtatttgttgtgacttgtaaagtgtggtatttaatttttatgattc----tcattggagtgtatttcaaatctttctacgctgatatcaaacatgaatttcttatgttatccttcttgctatagGTGAATCCAGGAAATGCTCCTCTAGTTGTTGGACAATTATTAGATGATGAATGCCCTGAAGATTTCATTAAAGGTCTTATACTTTCAGTTCGTTCTCTTC
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--------------------------gtatgcaactcttccaattcagtgttattggagtatcatc---attctcatgtgct-atgt---atttaaattctt---attttcctttatattgtagGTGAACCCTGGAAATGCTCCATTAGTTGTTGGACAGCTACTTGATGATGAGTGCCCTGAAGATTTCATTAAGGGTTTGATTCTGTCTGTCCGTTCTCTCC
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G111355_T01 (Zea mays), 3'ss of exon 1
gtatttgttgtgacttgtaaagtgtggtatttaatttttatgattctcattggagtgtatttcaaatctttctacgctgatatcaaacatgaatttcttatgttatccttcttgctatagGTGAATCCAGGAAATGCTCCTCTAGTTGTTGGACAATTATTAGATGATGAATGCCCTGAAGATTTCATTAAAGGTCTTATACTTTCAGTTCGTTCTCTTC
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--------------gttcagaaggtagttgtgtgtttcgactctgttaattcgtgcgtcgttcc--tcataataggttga----gtatgagaatggttaattcttttttcttgtttccagGTGAATCCCGGGAATGCTCCATTGGTAGTGGGGCAATTACTTGATGATGAATGCCCTGAAGATTTTATCAAGGGTTTGATCCTCTCTGTTCGTTCTCTCC
upper sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 21
--gtatttgttgtgacttgtaaagtgtggtattta---atttttatgattctcattggagtgtatttcaaatctttctacgctgatatc----aaacatgaatttcttatgttatcct-tcttg---ctatagGTGAATCCAGGAAATGCTCCTCTAGTTGTTGGACAATTATTAGATGATGAATGCCCTGAAGATTTCATTAAAGGTCTTATACTTTCAGTTCGTTCTCTTC
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gtacaattactgtaaggagttatttatt-tatttatttatttttccaaatgaagatgtttcattattttaattgcactgagtccatgtctgcagaagatgaaccatgtattttcttttgtctttaattgatagGTAAATCCGGGAAATGCTCCTCTAGTTGTTGGGCAACTTCTAGATGATGAATGCCCTGAAGATTTCATTAAAGGTCTCATTCTTTCAGTTCGGTCTCTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctttctacgctgatatcaaacatgaatttcttatgttatccttcttgctatagGTGAATCCAGGAAATGCTCCTCTAGTTGTTGGACAATTATTAGATGATGAATGCCCTGAAGATTTCATTAAAGGTCTTATACTTTCAGTTCGTTCTCTTC
cgctgat putative branch site (score: 4)
ttatccttcttgct putative PPT
aatttcttatgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttgttgtgacttgtaaagtgtggtatttaatttttatgattctcattggagtgtatttcaaatctttctacgctgatatcaaacatgaatttcttatgttatccttcttgctatagGTGAATCCAGGAAATGCTCCTCTAGTTGTTGGACAATTATTAGATGATGAATGCCCTGAAGATTTCATTAAAGGTCTTATACTTTCAGTTCGTTCTCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA