Sequence
atgc intronic sequence ATGC exonic sequencegtatgtagctcttattcctacagtccttccctatgcatacaacagaaaatatgtatatcttgatgaaatactatgcatcataaaatctgacttccatgttcatttttcttaatttgaatagAGTTATGCAAAATAGGCACTGAAGAGCAGAATGAGTGGTATTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGAACTAATAGAGCTACAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0154g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G178998_T01 (Zea mays), 3'ss of exon 3
--------------------------------------------------------gtatgtagctcttattcctacagtccttccctatgcatacaacagaaaa-----tatgta--tatcttg-atgaaatactatgcatcataaaat-ctgacttccatgttcatttttctta-atttgaatagAGTTATGCAAAATAGGCACTGAAGAGCAGAATGAGTGGTATTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGAACTAATAGAGCTACAAA
||| ||||| || |||| | | ||| | |||| || | || | || || ||||| | | | | |||| || ||| | | | ||| | | || ||| |||| || || | ||||||||||| |||||||| ||||| ||||| || || |||||||| ||||| || ||||| || || ||||| || |
gtacatcaacctaaactcgatttgtactccgagcttgcatgatgagacataaaactgtacttagctgagatatgtacacctcaaagc-atgtgtggaacaacaagcttcttgtggagtcattatgcatgaagctcaacg-gttataagccgctaactcacttctacatatgcatggtgacgaaacagAAAAGTGCAGGATTGGAAGCGAAGAGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCAACCGGCACTCGCACCAACAGAGCGACGAC
upper sequence: Vv02s0154g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G14700.1 (Glycine max), 3'ss of exon 1
gtatgtagctcttattcctacagtccttccctatgcatacaacagaaaatatgtatatcttgatgaaatactatgcatcataaaatctgacttccatgttcatttttcttaatttgaatagAGTTATGCAAAATAGGCACTGAAGAGCAGAATGAGTGGTATTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGAACTAATAGAGCTACAAA
| || ||| |||| ||| | | | | | || | ||| || ||| | | | || ||| || | | || | || || || || | || ||| |||||||||||||| || || || || | ||| |||||||||||||| |||||||||||||| ||||||||||||||||| || ||||||||||||||
-------gtaattcttcatacaaagctttcat-taatcaaagcattacatacaattaagaacatgtatcatagtatat-atagtatataaactc-acatttgttactc---atgtaaacagAATTATGCAAAATAGGAACCGATGAACAAAGTGACTGGTATTTCTTTAGTCATAAAGATAAGAAATATCCAACTGGAACTCGCACCAATAGAGCTACAAA
upper sequence: Vv02s0154g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G04250.1 (Glycine max), 3'ss of exon 1
gtatgtagctcttattcctacagtccttccctatgcatacaacagaaaatatgtatatcttgatgaaatactatgcatcataaaatctgacttccatgttcattt-ttcttaatttgaatagAGTTATGCAAAATAGGCACTGAAGAGCAGAATGAGTGGTATTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGAACTAATAGAGCTACAAA
| || | | | || | | || |||| || || | || | ||| ||| | | | | |||| || | || | || ||| ||||||||||||| || || || || | ||| ||||| ||||| || |||||||||||||| ||||||||||||||||| || ||||||||||||||
---------------------aaatatttttttttcttaatggaagcattacatatag-ttaataacatgaatcatagtatataatttatatactgacataatttgttgctcatgtaaacagAACTATGCAAAATAGGAACCGATGAACAAAGTGACTGGTACTTCTTCAGTCATAAAGATAAGAAATATCCAACTGGAACTCGCACCAATAGAGCTACAAA
upper sequence: Vv02s0154g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G03340.1 (Glycine max), 3'ss of exon 1
gtatgtagctcttattcctacagtcc-ttccctatgcatacaacagaaaatatgtatatcttgatgaaatactatgcatcataaaatctgacttccatgttcatttttcttaatttgaatagAGTTATGCAAAATAGGCACTGAAGAGCAGAATGAGTGGTATTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGAACTAATAGAGCTACAAA
||| ||| ||| || | | |||| || | || || ||| | ||| ||| | || | | | |||| |||| | | || | ||||| |||||||||||||| | || || | ||||| |||||||||||||| |||||||| |||||||| || ||||| ||||| || ||||||||||||||
gtacgtatgatatataagcctagctagcttcttatgattaagtctccaattagaaatacat-------ata-tataaaccacagtactgctcacatttgtttatttctgatgatat--atagAATTATGCAAAATAGGAAGCGATGAAGAAAATGAATGGTATTTCTTTAGTCATAAAGACAAGAAGTACCCCACTGGGACTCGTACCAATAGAGCTACAAA
upper sequence: Vv02s0154g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G12260.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatgtagctcttattcctacagtccttccctatgcatacaacagaaaatatgtatatcttgatgaaatactatgcatcataaaatctgacttccatgttcatttttcttaatttgaatagAGTTATGCAAAATAGGCACTGAAGAGCAGAATGAGTGGTATTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGAACTAATAGAGCTACAAA
|| | | || || |||| | | || | | | ||| || | | |||| | | | ||| ||| || | ||| ||| | ||||||||| |||||||| || ||||||||||| ||| ||||| ||||||||||||||||| ||||||||||| || || |||||||| |||||||| |||||
---------gtttgcccaatcccaccatctctatcctt-cattactttgtctctatttcctaaggaaagatttta------aaagtct---ttttttattcgttt------gtggaaatagAGTTGTGCAAAATTGGGCATGAAGAGCAGAGTGATTGGTACTTCTTTAGCCATAAAGACAAGAAGTATCCCACAGGGACTCGAACCAATAGAGCAACAAA
upper sequence: Vv02s0154g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G62700.1 (Arabidopsis thaliana), 3'ss of exon 1
gtatgtagctcttattcctacagtccttccctatgcatacaacagaaaatatgtatatcttgatgaaatactatgcatcataaaatctgacttccatgttcatttttcttaatttgaatagAGTTATGCAAAATAGGCACTGAAGAGCAGAATGAGTGGTATTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGAACTAATAGAGCTACAAA
||| | | |||| | | | | | || | ||| | | ||| | || | || | | | | || || | ||| | |||||| |||||||||||| ||||| | |||||||||| || ||||| |||||||| |||||||| ||||||||||| || ||||||||||| |||||||| || ||
---------gtttagcaggaaaatcctatcatctctctttagtagtga-tatccttgttttggtataa-attaaggcttacgattgttgtttt------ttctttgtgataattt----agAGTTATGCAAGATAGGAAACGAAGAGCAGAGCGAATGGTACTTCTTTAGTCATAAAGACAAGAAGTATCCCACGGGAACTCGAACCAATAGAGCCACGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatactatgcatcataaaatctgacttccatgttcatttttcttaatttgaatagAGTTATGCAAAATAGGCACTGAAGAGCAGAATGAGTGGTATTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGAACTAATAGAGCTACAAA
tcttaat putative branch site (score: 3)
ttcatttttcttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtagctcttattcctacagtccttccctatgcatacaacagaaaatatgtatatcttgatgaaatactatgcatcataaaatctgacttccatgttcatttttcttaatttgaatagAGTTATGCAAAATAGGCACTGAAGAGCAGAATGAGTGGTATTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGAACTAATAGAGCTACAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT