Sequence
atgc intronic sequence ATGC exonic sequence...taggccatcgtcattgacaacatatatctcaataattagctggattctgtcctttaattgtactacttttgatgatgtccaccatctttccttcttacagGAGAAGTATTTAGAGATATTGTTGGTAGTGCATATTACATTGCACCTGAAGTATTGAAGAGAAGATATGGACCAGAGGTCGATATATGGAGTGTTGGGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G08140.1 (Glycine max), 3'ss of exon 1
taggccatcgtcattgacaacatatatctcaataatt-agctggattctgtcctttaattgtactacttttgatgatgtccaccatctttccttcttacagGAGAAGTATTTAGAGATATTGTTGGTAGTGCATATTACATTGCACCTGAAGTATTGAAGAGAAGATATGGACCAGAGGTCGATATATGGAGTGTTGGGGT
| ||| | | | || | ||| || | | | | | | | | | |||| || | | | |||||||| || | ||| |||||||| ||||||||||||||||| |||||||| |||||||| | |||||| ||||| || || |||||||||||||| ||
-atttttataaaattatccaaacatgttagcatattttaaaagtactttattttagagaaaaatagattttaatagcatatttttatgctataattaacagGAGAGACGTTCAAAGACATTGTTGGAAGTGCATATTACATTGCTCCTGAAGTCTTGAAGAGGAAATATGGGCCAGAAGTTGACATATGGAGTGTTGGTGT
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G36000.1 (Glycine max), 3'ss of exon 1
taggccatcgtcattgacaacatatatctcaataattagctggattctgtcctttaattgtactacttttgatgatgtccaccatc----tttccttcttacagGAGAAGTATTTAGAGATATTGTTGGTAGTGCATATTACATTGCACCTGAAGTATTGAAGAGAAGATATGGACCAGAGGTCGATATATGGAGTGTTGGGGT
|| || | | | | || || | | |||| | || || || || | | || | | | | | | || | | ||||| || ||| | ||| |||||||| ||||||||||||||||| ||||| || |||||||| | |||||| ||||| || || |||||||||||||| ||
tatgc--ttgcaaaaggaaa-atgttaggaattaatgtaaagaatcttgattcttcat-atgcaacatgaagcgggttttaataacatatttatgctttaacagGGGAGACATTCAAAGACATTGTTGGAAGTGCATATTACATTGCTCCTGAGGTCTTGAAGAGGAAATATGGGCCAGAAGTTGACATATGGAGTGTTGGTGT
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G04010.1 (Glycine max), 3'ss of exon 1
-----taggccatcgtcattgacaacatatatctcaataattagctggattctgtcctttaattgtactacttttgatgatgtccaccatctttccttcttacagGAGAAGTATTTAGAGATATTGTTGGTAGTGCATATTACATTGCACCTGAAGTATTGAAGAGAAGATATGGACCAGAGGTCGATATATGGAGTGTTGGGGT
| | || | || | || | || || | | || | || | || | | | | ||| |||| |||| | |||||||| | |||| || |||||||| ||||||||||||||||||||||| || ||||| |||| ||| || ||||| || ||||| |||||| |||| ||
tcatcaatatatttgttgcttgaaata-atcttaggatgat-aacacaatcttcaaattcgaatgaagcatactctaacatggaattcatc---ccttttgacagGAGAGATGTTTAAGGACATTGTTGGCAGTGCATATTACATTGCACCTGAGGTCTTGAAAAGAAAATACGGGCCAGAAGTTGATATTTGGAGTATTGGTGT
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G44720.1 (Glycine max), 3'ss of exon 1
taggccatcgtcattgacaacatatatctca--ataattagctggattctgtcctttaattgtactacttttgatgatgtccaccatctttccttcttacagGAGAAGTATTTAGAGATATTGTTGGTAGTGCATATTACATTGCACCTGAAGTATTGAAGAGAAGATATGGACCAGAGGTCGATATATGGAGTGTTGGGGT
| | ||| ||| ||| |||| | || || || | |||| | | | || || | | | |||| | |||||||| | |||| || |||||||| |||||||||||||||||||| || || || || |||| ||| ||||| || || || || |||||| |||| ||
-aaatggacagaattatcaatata-atcttaggatgatagcacaattttcaaattctaatgaagcatactctaataatatggaattcatccccttttgacagGAGAGATGTTTAAGGACATTGTTGGCAGTGCATATTACATTGCACCCGAGGTCTTAAAAAGAAAATACGGACCGGAAGTTGACATTTGGAGTATTGGTGT
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G12180.1 (Arabidopsis thaliana), 3'ss of exon 1
----------------------taggccatcgtcattgac--aacatatatctcaataattagctggattctgtcctttaattgtactacttttgatgatgtccaccatctttccttc---ttacagGAGAAGTATTTAGAGATATTGTTGGTAGTGCATATTACATTGCACCTGAAGTATTGAAGAGAAGATATGGACCAGAGGTCGATATATGGAGTGTTGGGGT
|| |||| | ||| ||| ||| ||| | | || | || | | || | | | ||||| |||||||||| ||||| | |||||||| || ||||| |||||||| |||||||| || ||||| |||| ||||||||||||| ||||| |||||| |||| ||
gttttttcactggaatcatcaaaagcccattcctgctacttgaaccagcatcgttgtaaacc-ctgcgtgacaaataaaagaggtcatggttatactcatataaaatttgtttccgctgtgttacagGAGAGGTATTCAAGGATATTGTGGGGAGTGCTTATTACATCGCACCTGAGGTTTTGAAAAGAAAGTATGGACCAGAGGCAGATATTTGGAGTATTGGTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgtcctttaattgtactacttttgatgatgtccaccatctttccttcttacagGAGAAGTATTTAGAGATATTGTTGGTAGTGCATATTACATTGCACCTGAAGTATTGAAGAGAAGATATGGACCAGAGGTCGATATATGGAGTGTTGGGGT
ttttgat putative branch site (score: 4)
tgtccaccatctttcc putative PPT
tttaattgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taggccatcgtcattgacaacatatatctcaataattagctggattctgtcctttaattgtactacttttgatgatgtccaccatctttccttcttacagGAGAAGTATTTAGAGATATTGTTGGTAGTGCATATTACATTGCACCTGAAGTATTGAAGAGAAGATATGGACCAGAGGTCGATATATGGAGTGTTGGGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- ggccatc
- - - - - -cattgac
- - - - - - - - - - - - - - - - - - tagctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tccacca