Sequence
atgc intronic sequence ATGC exonic sequencegttgtttgtgatgtttctcgtctgtgttttggattatttggagattattaggcgattttggaatgttaatttgtttgtttggatgctatgcagCTTGATAGAGTTTCTAGCATTGCTGCCAAGTACATAGGGCGGCCGATTTCACAGCTCCCACCAGTACAGCCTGTCCATATTTCTTCATTGGATTTGTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G34350.1 (Glycine max), 3'ss of exon 3
---------------------gttgtttgtgatgtttctcgtctgtgttttggattatttggagattattaggcgattttggaatgttaatttgtt----------tgtttg-gatgctatgcagCTTGATAGAGTTTCTAGCATTGCTGCCAAGTACATAGGGCGGCCGATTTCACAGCTCCCACCAGTACAGCCTGTCCATATTTCTTCATTGGATTTGTCAA
| || | | | | || || || || || || | | | | | | || ||| | ||| || |||| | | | |||||||||||||||| ||||||||||| || |||||||| || |||| ||||| || |||||||| || |||||| |||| || ||||| |||| |||||||
gtaatgatgtgcaaaggttttctcattcattaattcctttgtttggattcatga--atgtgaataatttcattttttcttttgttgtaactttcttgtccattgaacatttgtgttaatttgcagCTTGATAGAGTATCTAGCATTGCAGCTAAGTACATTGGAAGGCCAATTTCTCAACTCCCACCTGTTCAGCCTATCCACATATCTTCTCTGGACTTGTCAA
upper sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G06190.1 (Glycine max), 3'ss of exon 3
gttgtttgtgatgtttctcgtctgtgttttggattatttggagattattaggcgattttggaatgttaatttgtttgtttggatgctatgcagCTTGATAGAGTTTCTAGCATTGCTGCCAAGTACATAGGGCGGCCGATTTCACAGCTCCCACCAGTACAGCCTGTCCATATTTCTTCATTGGATTTGTCAA
|| | | | || || |||| | | | | | ||||| | | || | | | |||||||||||||||| ||||||||||||||||||||||| || | || ||||| || ||||| || || |||||| | ||||| || || |||| || ||||
gtcaatggcatgcatatatatcatcaaattaaattaaatcaaaacttgtctttgatttcttttttactaactggtcaacaatttaatttgcagCTTGATAGAGTATCTAGCATTGCTGCCAAGTACATTGGAAGACCAATTTCCCAACTCCCGCCGGTCCAGCCTATTCATATATCGTCTCTGGACTTATCAA
upper sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G33520.1 (Glycine max), 3'ss of exon 3
gttgtttgtgatgtttctcgtctgtgttttggattatttggagattattaggcgattttggaatgttaatttgt--ttgtttggatgctatgcagCTTGATAGAGTTTCTAGCATTGCTGCCAAGTACATAGGGCGGCCGATTTCACAGCTCCCACCAGTACAGCCTGTCCATATTTCTTCATTGGATTTGTCAA
| ||| | || | | || | |||| | | | || | || | | |||||||||||||||| ||||||||||||||||||||||| || | || ||||| || ||||| || || |||||| | ||||| || || |||| || ||||
---------------------gtcaatttcgtatcgtcaaaaacttgtctttttcttttttactcctttcttatggttaacaatttaatttgcagCTTGATAGAGTGTCTAGCATTGCTGCCAAGTACATTGGAAGACCAATTTCCCAACTCCCGCCGGTCCAGCCTATTCATATATCGTCTCTGGACTTATCAA
upper sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G29810.1 (Glycine max), 3'ss of exon 3
gttgtttgtgatgtttctcgtctgtgttttggattatttggagattattaggcgattttggaatgtt------aatttgtttgtttggat----gctatgcagCTTGATAGAGTTTCTAGCATTGCTGCCAAGTACATAGGGCGGCCGATTTCACAGCTCCCACCAGTACAGCCTGTCCATATTTCTTCATTGGATTTGTCAA
|| || | | | | || || || || | | | | |||| ||||| ||| || ||| || | || || || |||||||||||||||| ||||||||||| || |||||||| || |||| ||||| || |||||||| || |||||| | || || ||||| |||| ||||||
gtaattcattaattcctttgtttggattcatgaatgtgaataattcattaattccttttgtaatcttttcatgaatgtgaataatttcatttttcctttgcagCTTGATAGAGTATCTAGCATTGCAGCTAAGTACATTGGAAGGCCAATTTCTCAACTCCCACCTGTTCAGCCTATTCACATATCTTCTCTGGACCTGTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggagattattaggcgattttggaatgttaatttgtttgtttggatgctatgcagCTTGATAGAGTTTCTAGCATTGCTGCCAAGTACATAGGGCGGCCGATTTCACAGCTCCCACCAGTACAGCCTGTCCATATTTCTTCATTGGATTTGTCAA
tgttaat putative branch site (score: 3)
aatgttaatttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtttgtgatgtttctcgtctgtgttttggattatttggagattattaggcgattttggaatgttaatttgtttgtttggatgctatgcagCTTGATAGAGTTTCTAGCATTGCTGCCAAGTACATAGGGCGGCCGATTTCACAGCTCCCACCAGTACAGCCTGTCCATATTTCTTCATTGGATTTGTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC