Sequence
atgc intronic sequence ATGC exonic sequence...ttatagtcatctaattgttttctgttgttaattatcttgtttctttctttacacacacacatgcacacatataccatgtttattgactagttctttccagGTAATTGCAAATAGAGCAGCTGAGATTCTTGGCCACAAACGGGGTGAAAAGTTCGTGCACCCAAATGATCATGTCAACAGATCACAATCATCAAATGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g01700.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g21950.1 (Oryza sativa), 3'ss of exon 3
ttatagtcatctaattgttttctgttgttaattatcttgttt-ctttctttacacacacaca-tgcacacatataccatgttt-attgactagttctttccagGTAATTGCAAATAGAGCAGCTGAGATTCTTGGCCACAAACGGGGTGAAAAGTTCGTGCACCCAAATGATCATGTCAACAGATCACAATCATCAAATGACA
|| | ||| || |||| |||||| | ||| || ||| | | || | |||||| | | || || | | | |||| ||||||||||| || |||||||||||||| || || || || || ||||| || ||||| ||||||||||| ||||||||||| || |||||||| |
--att-ttatcatgtttaattctcatgttaacattactgtgagctaagtttgtgttattatactgtaatatcttaccatttctgatctgcttttgcaatttagGTTATTGCAAATAGGGCCGCTGAGATTCTTGGACATAAGCGTGGCGAGAAGTTTGTACACCCTAATGATCATGTGAACAGATCACAGTCCTCAAATGATA
upper sequence: Vv14s0060g01700.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G010823_T01 (Zea mays), 3'ss of exon 3
ttatagtcatctaattgttttctgttgttaattatcttgtttctttctttacacacacacatgcacacatataccatgtttattgactagttctt---tccagGTAATTGCAAATAGAGCAGCTGAGATTCTTGGCCACAAACGGGGTGAAAAGTTCGTGCACCCAAATGATCATGTCAACAGATCACAATCATCAAATGACA
|||| || | | |||| | || || || | | || | || || ||||||| || || | ||||||||||||||||| ||| ||||||| ||||| ||||| || ||||| ||||| |||||||||||||| ||||| || || |||||||| |||||||| |
---tagttttcctgtaagctaatgttcatgtgaattttattgtgaacctatcatgcttctgccaactgtgctatattgtttatgatctcttttccgaattcagGTAATTGCAAATAGGGCATCTGAGATCCTTGGACACAAGCGCGGTGAGAAGTTTGTGCACCCAAATGACCATGTGAATAGGTCACAATCTTCAAATGATA
upper sequence: Vv14s0060g01700.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G348729_T01 (Zea mays), 3'ss of exon 6
ttatagtcatctaattgttttctgttgttaattatcttgtttctttctttacacacacacatgcacacatataccatgtttattgactagttctt---tccagGTAATTGCAAATAGAGCAGCTGAGATTCTTGGCCACAAACGGGGTGAAAAGTTCGTGCACCCAAATGATCATGTCAACAGATCACAATCATCAAATGACA
|||| || | | |||| | || || || | | || | || ||||||| || || | ||||||||||||||||| ||| ||||||| ||||| ||||| | ||| | ||||| |||||||||||||| ||||| || || |||||||| |||||||| |
---tagttttcctgtaagctaatgttcatgtgaattttattatgaacctagcatgtttctgccagctgtgctatattgtttatgatctcttttccgaattcagGTAATTGCAAATAGGGCATCTGAGATCCTTGGACACAAGGGCGGTCAGAAGTTTGTGCACCCAAATGACCATGTGAATAGGTCACAATCTTCAAATGATA
upper sequence: Vv14s0060g01700.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G50950.3 (Arabidopsis thaliana), 3'ss of exon 2
-ttatagtca--tctaattgttttctgttgttaattatcttgtttctttctttacacacacacatgc-acacatataccatgtttattgactagttctttccagGTAATTGCAAATAGAGCAGCTGAGATTCTTGGCCACAAACGGGGTGAAAAGTTCGTGCACCCAAATGATCATGTCAACAGATCACAATCATCAAATGACA
| | ||| | |||||| | || ||| || || || | ||| || || || | | | | || | | ||| | | | ||| ||||| ||||| ||||||||||||||||||||||| |||||||| |||||||| | |||||||||||||| ||||| |||||||||||||| || |||||||
ttaagagttaagactaattacaat--gtcaaaaatgatttt-ttagatacttaaccaccagacgtccgaggtaattaaacagatcattttgt-gctttttacagGTCATTGCCAATAGAGCAGCTGAGATTCTTGGTCACAAACGTGGTGAAAAAATTGTGCACCCAAATGACCATGTGAACAGATCACAATCTTCTAATGACA
upper sequence: Vv14s0060g01700.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 4
-----------------ttatagtcatctaattgttttctgttgttaattatcttgtttcttt------ctttacacacacacatgcacacatataccatgtttattgactagttctttccagGTAATTGCAAATAGAGCAGCTGAGATTCTTGGCCACAAACGGGGTGAAAAGTTCGTGCACCCAAATGATCATGTCAACAGATCACAATCATCAAATGACA
|| || ||||| | ||| | || || || | | | |||| | | || | | | | | | | |||| ||||| ||||| ||||||||||||||||||||||| | |||||| ||||| || | |||||||||||||| ||||| |||||||||||||| || || ||||
gtaatttctttgcagtttttgagacatctgttgaggatctcattgtatatagctagctacaagagaaggctttctgtttatgttttttcattttcttttggccttgttatttgctcttcacagGTCATTGCTAATAGAGCAGCTGAGATTCTTGGTCGCAAACGTGGTGAGAAATGTGTGCACCCAAATGACCATGTGAACAGATCACAATCTTCTAACGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttacacacacacatgcacacatataccatgtttattgactagttctttccagGTAATTGCAAATAGAGCAGCTGAGATTCTTGGCCACAAACGGGGTGAAAAGTTCGTGCACCCAAATGATCATGTCAACAGATCACAATCATCAAATGACA
tattgac putative branch site (score: 2)
ttctttcc putative PPT
atgtttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatagtcatctaattgttttctgttgttaattatcttgtttctttctttacacacacacatgcacacatataccatgtttattgactagttctttccagGTAATTGCAAATAGAGCAGCTGAGATTCTTGGCCACAAACGGGGTGAAAAGTTCGTGCACCCAAATGATCATGTCAACAGATCACAATCATCAAATGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - -ctgttgt
- - - - - - - - - - - - - - - - - - - - - - - - - acacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - -cacacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgtt
