Sequence
atgc intronic sequence ATGC exonic sequencegtgagtttgtggtctcattacttaaattcatctaacttcatttttcttaattgcaattgctatgctatagaacattaaaattaaactaatatctctccccatcatgtagCCTGCCCACGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAG
Basic information
species | Glycine max |
transcript | GLYMA08G14040.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 3'ss of exon 12
gtgagtttgtggtctcattacttaaattcatctaacttcatttttcttaattgcaattgctatgctatagaacattaaaattaaactaatatctctcc--ccatcatgtagCCTGCCCACGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAG
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-------------gtactgacctatgtctgcctacttctaatactctca--tattatttgtttgttagcatgcat---gatcatattggaacttcctcgtctttgaaacagCCTGCCCATGAGAAAATTGGAGTCGTAGATTCTCAATGGATCGTTCATCAAACTGTTCCCTCGCTTGGGAACCAG
upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv00s0187g00030.t01 (Vitis vinifera), 3'ss of exon 7
gtgagtttgtggtctcattacttaaattcatctaacttcatttttcttaattgcaattgctatgctatagaacattaaaattaaactaatatctctcc--ccatcatgtagCCTGCCCACGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAG
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-------------gtactgacctatgtctgcctacttctaattctctta--tatcatttgtttgttagcatgcat---gatcatattggaacttcctcgtctttgaaacagCCTGCCCATGAGAAAATTGGAGTTGTAGATTCTCAATGGATCATTCATCAAACTTTTCCCTCGCTTGGGAACCAG
upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv13s0106g00570.t01 (Vitis vinifera), 3'ss of exon 3
gtgagtttgtggtctcattacttaaattcatctaacttcatttttcttaattgcaattgctatgctatagaacattaaaattaaactaatatctctcc--ccatcatgtagCCTGCCCACGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAG
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-------------gtactgacctatgtctgcctacttctaattctctta--tattatttgtttgttagcatgcat---gatcatattggaacttgctcgtctttgaaacagCCTGCCCATGAGAAAATTGGAGTTGTAGATTCTCAAGGGATCGTTCATCAAACTGTTCCCTCGCTTGGGAACCAGMapped 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|207752629|gb|GD724957.1|GD724957EST: ATTTGGTCCATGGCTGGGGCCTTGATTTTGCTCTTAGAAAATGTGTTGAG CCTGCCCACGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAA
genomic: ATTTGGTCCATGGCTGGGGCCTTGATTTTGCTCTTAGAAAATGTGTTGAGgtgagtttgt ... catcatgtagCCTGCCCACGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattgctatgctatagaacattaaaattaaactaatatctctccccatcatgtagCCTGCCCACGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAG
aactaat putative branch site (score: 2)
tatctctccccatc CT-rich tract
tatagaacattaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtttgtggtctcattacttaaattcatctaacttcatttttcttaattgcaattgctatgctatagaacattaaaattaaactaatatctctccccatcatgtagCCTGCCCACGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA