Sequence
atgc intronic sequence ATGC exonic sequence...atcttcttgtttggatgcctgtctgagtagggatttggttaagtactacaggtttgtttccagcacacttcttactaacacattattttatattgagaagGCCCTGATGCAGGCAATTGAGCATGAGCTTGAAGTCACAGTACGGGTACATGAAGTGCGTTCTCAATATGAGCATCAAATGGAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA02G37800.1 (Glycine max), 3'ss of exon 20
------------------------------------------------------------------------------------atcttcttgtttggatgcctgtctgagtaggg-atttggttaagtactacaggtttgtttccagcacacttcttactaacacattattttatattgagaagGCCCTGATGCAGGCAATTGAGCATGAGCTTGAAGTCACAGTACGGGTACATGAAGTGCGTTCTCAATATGAGCATCAAATGGAAGA
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gtatttctgtttctatgcctgtgaatcacaaggacttcattgtttccttagcaatgattaatgctcgatgttgctaaatattctaccctttgtaatatatcataattccatcatgctattttgcggagga-tgtctttgtgttttaatagtgcttctgcttgacatgtgtgtttctattttgaagGCTTTGATGCAGGCAATTGAGCATGAACTTGAGGTCACTGTCCGAGTGCATGAAGTACGTTCAGCACATGAGCGTCAAATGGAAGA
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA14G36030.1 (Glycine max), 3'ss of exon 20
-------------------------------------------------------------------atcttcttgtttgg---atgcctgtctga-gtagggatttggttaag-----tactacaggtttgtttccagc--acacttcttactaacacattattttatattgagaagGCCCTGATGCAGGCAATTGAGCATGAGCTTGAAGTCACAGTACGGGTACATGAAGTGCGTTCTCAATATGAGCATCAAATGGAAGA
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gtacttctttttctatgcttgtgaatcacaaggactaaattgtttccttagcaatgattaatgctcgatgttgctaaatatcctacccttttgtaacataaaaattccatcatgctattttgtggaggatgtcttggtgtttaagcttctacttgacatgtgtttctattt---gaagGCTTTGATGCAGGCAATTGAGCATGAACTTGAGGTCACTGTCCGAGTGCATGAAGTACGTTCAGCACATGAGCGTCAAATGGAAGA
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: AT5G60930.1 (Arabidopsis thaliana), 3'ss of exon 20
------------------------------atcttcttgtttggatgcctgtctgagt--agggatttggttaagtactacaggtttgtttccag-caca-cttcttactaacac--attattttatattgagaagGCCCTGATGCAGGCAATTGAGCATGAGCTTGAAGTCACAGTACGGGTACATGAAGTGCGTTCTCAATATGAGCATCAAATGGAAGA
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gtaacacccaccaaactctatgaaaccaatgttttgttttccaagttattgactaggtttagtgagtttggtgatt-cttctggttagtttgtaaatgcaactttttaataatttcaaatgtactccattt-gcagGCATTGATGCAAGCAATTGAGCATGAGATTGAAGTCACTGTTCGGGTTCACGAAGTGCGTTCTGAATATGAGAGGCAAACGGAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctacaggtttgtttccagcacacttcttactaacacattattttatattgagaagGCCCTGATGCAGGCAATTGAGCATGAGCTTGAAGTCACAGTACGGGTACATGAAGTGCGTTCTCAATATGAGCATCAAATGGAAGA
tactaac putative branch site (score: 0)
ttactaacacattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcttcttgtttggatgcctgtctgagtagggatttggttaagtactacaggtttgtttccagcacacttcttactaacacattattttatattgagaagGCCCTGATGCAGGCAATTGAGCATGAGCTTGAAGTCACAGTACGGGTACATGAAGTGCGTTCTCAATATGAGCATCAAATGGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- cttcttg
- - - - - - ggatgcc
- - - - - - - - - -tgtctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agcacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctaacac