Sequence
atgc intronic sequence ATGC exonic sequencegtatccataaatatttcatactttaatttttaagttgattatcatcataatagaatgtgattttatgtaacattcaatgtgttggtttgttcattgattcaattaagtgtttaccttacatatgttatcttcaagTTTGAATTCCACCATTGTGCCATTATTCGAGAAGGTTCTGAGTGCTAGTGATGCTGGTCGAATTGGTCGTTTGGTCCTCCCAAAAGCATGTGCTGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g08100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G158162_T03 (Zea mays), 3'ss of exon 4
----------------------------------------------------gtatccataaatatttcatacttta-atttttaagttgattatcatcataatagaatgtgatt-ttatgtaacattcaatgtgttggtttgttcattgattcaattaagtgtttaccttacata--tgttatcttcaagTTTGAATTCCACCATTGTGCCATTATTCGAGAAGGTTCTGAGTGCTAGTGATGCTGGTCGAATTGGTCGTTTGGTCCTCCCAAAAGCATGTGCTGAA
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gtatccttgataaggtctccatacatttgaaactgtgaacttcctggtgacattgatctcagacatttagtaacttatacatcaaggctctagaatagctcattaggcttaaacccttataatatgatgcataaatttcttgtgtaacagatatagtttttcttttatcttccttgactatattttgcaagTTCAAATTCCACAATCGTTCCATTGTTCGAGAAGGTCCTGAGTGCGAGTGATGCAGGCCGCATAGGGCGCCTTGTTCTTCCAAAAGCTTGTGCCGAG
upper sequence: Vv06s0004g08100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G05840.1 (Glycine max), 3'ss of exon 6
gtatccataaatatttcatacttta-atttttaagttgattatcatcataatagaatgtgattttatgtaacattcaatgtgttggtttgttcattgattcaattaagtgtttaccttacatatgttatcttcaagTTTGAATTCCACCATTGTGCCATTATTCGAGAAGGTTCTGAGTGCTAGTGATGCTGGTCGAATTGGTCGTTTGGTCCTCCCAAAAGCATGTGCTGAA
|| ||||| |||||| | ||| || || | | ||| | | | || || | |||||||| |||| | |||| ||||| || | | || |||||||| ||||| | ||||||||||| |||||||| ||||||| |||||||| ||||||||||| ||| | || ||||||||||| ||||||||
---------------gtatcctttatattttttatttggttgtcttgaacatatataatagactctgatagtataaa----gttggtttattcagta------------gtttccctta-atgtatgat-----agTTTGAAATCCACTGTAGTGCCATTATTTGAGAAGGTGTTGAGTGCCAGTGATGCAGGTCGAATTGGCCGTCTTGTTCTCCCAAAAGCCTGTGCTGAG
upper sequence: Vv06s0004g08100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G38490.1 (Glycine max), 3'ss of exon 1
gtatccataaatatttcatactttaatttttaagttgattatcatcataatagaatgtgattttatgtaacattcaatgtgttggtttgttcattgattcaattaagtgtttaccttacat-atgttatcttca-agTTTGAATTCCACCATTGTGCCATTATTCGAGAAGGTTCTGAGTGCTAGTGATGCTGGTCGAATTGGTCGTTTGGTCCTCCCAAAAGCATGTGCTGAA
| || | |||| | | || || | ||| | || ||| ||| | | | | |||||||| | | |||||||| || || || |||||||| || |||||||| ||||||| |||||||| |||||||||||||| | || ||||||||| | ||||||||
----------------------------------------------------gcata-ggttttgcctgttacacatcgtctatgtt-atatataaatttgattcatcaccagtttcccttgatgttatcattacagtttgaagtctactatagTGCCATTGTTTGAGAAGGTATTGAGTGCCAGTGATGCAGGTCGAATTGGTCGACTTGTTCTCCCAAAATCTTGTGCTGAG
upper sequence: Vv06s0004g08100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G40280.1 (Glycine max), 3'ss of exon 3
gtatccataaatatttcatactttaatttttaagttgattatcatcataatagaatgtgattttatgtaacattcaatgtgttggtttgttcattgattcaattaagtgtttaccttacat-atgttatcttca-agTTTGAATTCCACCATTGTGCCATTATTCGAGAAGGTTCTGAGTGCTAGTGATGCTGGTCGAATTGGTCGTTTGGTCCTCCCAAAAGCATGTGCTGAA
| || || || | |||| | | | | | || || | | | || | | || ||| ||| | | | | | |||||||| ||| |||||||| || || || |||||||| ||||||||||| ||||||| || ||||| |||||||||||||| | || ||||||||| | || |||||
-----------------------------------ttataat-ataggagtagatttggcctgttattcaccgtctacattatacttcgat-ataaatttgattcatcactagtttcccttgatgttatcatcacagTTTGAAGTCTACTATAGTGCCATTGTTCGAGAAGGTATTGAGTGCCAGCGATGCAGGTCGAATTGGTCGACTTGTTCTCCCAAAATCTTGCGCTGAG
upper sequence: Vv06s0004g08100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G30470.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatccataaatatttcatactttaatttttaagttgattatcatcataatagaatgtgat-tttatgtaacattcaatgtgttggtttgttcattgattcaattaagtgtttaccttacatatgttatcttcaagTTTGAATTCCACCATTGTGCCATTATTCGAGAAGGTTCTGAGTGCTAGTGATGCTGGTCGAATTGGTCGTTTGGTCCTCCCAAAAGCATGTGCTGAA
|||| | || | | | | | || || | || | | ||| | || | | | | |||||| |||| | ||| |||||||||| | |||||| || | || ||||| ||| ||||| |||||||||||||| ||||||||| | || || |||||||| ||||| ||
--------------------------------------gtatcctt-tatttgcttctagtacttttgccaaatattttattctggacagacttctggt--gactcattgtttatcttaa------caaattctagTTTGAATTTGAACATTGTACCTCTCTTTGAGAAAACTCTTAGTGCCAGTGATGCTGGTCGCATTGGTCGTCTAGTTCTTCCAAAAGCCTGTGCAGAG
upper sequence: Vv06s0004g08100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S31_242V6.1 (Physcomitrella patens), 3'ss of exon 5
gtatccataaatatttcatactttaatttttaagttgattatcatcataatagaatgtgattttatgtaac---attcaatgtgttggtttgttcattgattcaattaagtgtttaccttacatatgttatc---ttcaagTTTGAATTCCACCATTGTGCCATTATTCGAGAAGGTTCTGAGTGCTAGTGATGCTGGTCGAATTGGTCGTTTGGTCCTCCCAAAAGCATGTGCTGAA
| | ||| |||||| || | ||| | | | ||| | | || || ||||| || ||| | | || | |||| | | || | || || || | || || | | ||||| || | |||||||| | |||||||| |||||||| ||||| |||||||||||||| || ||||||||||| || ||
--------------------gtatcctttctaagtttgtt-tattcaaatttg--tgtaaataggggttacgggattcagtgagtt---tcgagtatcattacaatctaatcttcagttttcacttgacaatgcattacagCACACAAACTACCATCACTCCTCTGTTCGAGAAAATGCTGAGTGCCAGTGATGCCGGTCGGATTGGTCGTTTGGTGCTTCCAAAAGCATGCGCCGAG
upper sequence: Vv06s0004g08100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S42_132V6.1 (Physcomitrella patens), 3'ss of exon 6
gtatccataaatatttcatactttaatttttaagttgattatcatcataatagaatgtgattttatgtaacattcaatgtgttggtttgttcattgattcaatt--aagtgtttaccttacatatgttatcttcaagTTTGAATTCCACCATTGTGCCATTATTCGAGAAGGTTCTGAGTGCTAGTGATGCTGGTCGAATTGGTCGTTTGGTCCTCCCAAAAGCATGTGCTGAA
|||||| | | ||||||| | || | ||| ||||| | | | ||| | ||| || | || | | || | | | | || || || ||| ||| | ||| |||| || || ||| || | ||||||| || || |||||||| | |||||||| || ||||||||||| |||||||||||||| || |||||||||||||||||
gtatcctttcagatttcatgcattcaatttc----tgatt-------tcgtgggatgagggtttttgggatttttatgatttt----cttaaaagggtacagtttaaattgtgtacttgaca-atgt-atttt--agTATGCAAACCACCATCACTCCCTTGTTCGAGAAAATGCTGAGTGCCAGCGATGCTGGTCGGATTGGTCGTTTGGTGCTTCCAAAAGCATGTGCTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttggtttgttcattgattcaattaagtgtttaccttacatatgttatcttcaagTTTGAATTCCACCATTGTGCCATTATTCGAGAAGGTTCTGAGTGCTAGTGATGCTGGTCGAATTGGTCGTTTGGTCCTCCCAAAAGCATGTGCTGAA
accttac putative branch site (score: 3)
ttatcttc putative PPT
attgattcaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatccataaatatttcatactttaatttttaagttgattatcatcataatagaatgtgattttatgtaacattcaatgtgttggtttgttcattgattcaattaagtgtttaccttacatatgttatcttcaagTTTGAATTCCACCATTGTGCCATTATTCGAGAAGGTTCTGAGTGCTAGTGATGCTGGTCGAATTGGTCGTTTGGTCCTCCCAAAAGCATGTGCTGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG