Sequence
atgc intronic sequence ATGC exonic sequencegtaatgttaaccatcagcaatattgacctctgtagaactccacttttgatgtaggtttgctatcattttttcaattgcagctgctgatgcacttaatcctttatgttctacagGCTCCTCTCAATAGCTGAGGAGGCCATGGGGGAGTTCCTTTCAAAGGCTAAGGGAACTGCTGTTGATTGGGTCCAGATTCCTGGGATGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g01890.2 (Oryza sativa), 3'ss of exon 4
gtaatgttaaccatcagcaat-attgacctctgtagaactccacttttgatgtaggtttgctatcattttttcaattgcagctgctgatgcacttaatcctttatgttctacagGCTCCTCTCAATAGCTGAGGAGGCCATGGGGGAGTTCCTTTCAAAGGCTAAGGGAACTGCTGTTGATTGGGTCCAGATTCCTGGGATGAAG
|| | | || | | |||| |||||| | | | ||| | | ||||| | | ||| ||| ||| || ||| | |||||| ||||||| ||||| || |||||| || || |||||||| |||||||||| || || ||| |||||||||||||||| ||||||||||||
-----gtaagtaaatagttctgagtgactcaggtagaatt--attgttgg-atggacttgctctttcgatatca--tgctatcttaactgccttttatctt----gttcta--gGCTCCTTTCAATTGCAGAGGAGACCTTGACAGAGTTCCTCTCAAAGGCTACTGGTACAGCTATTGATTGGGTCCAGATGCCTGGGATGAAG
upper sequence: Vv13s0019g04320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G469551_T02 (Zea mays), 3'ss of exon 4
gtaatgttaaccatcagcaatattgacctctgtagaactccacttttgatgtag-gtttgctatcattttttcaattgcagctgctgatgcacttaatcctttatgttctacagGCTCCTCTCAATAGCTGAGGAGGCCATGGGGGAGTTCCTTTCAAAGGCTAAGGGAACTGCTGTTGATTGGGTCCAGATTCCTGGGATGAAG
|||| || ||| | | | | | | |||| ||||| | ||| |||| || | | | | || | | || | ||| | | | ||||||||| |||| || |||||| || || |||||||| |||||||||| || |||||| |||||||||||||||| ||||||||||||
gtaa-gtaaactgtaaaccaga--gcttgctgtgaaactctctcacttcaatagtgtttaataagaacgtactgttgatacatgatactaaaccttttccacttt-tgggccagGCTCCTTGCAATTGCAGAGGAGACCTTGACAGAGTTCCTCTCAAAGGCTACAGGGACTGCTATTGATTGGGTCCAGATGCCTGGGATGAAG
upper sequence: Vv13s0019g04320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G109987_T01 (Zea mays), 3'ss of exon 4
gtaatgttaaccatcagcaatattgacctctgtagaactccacttttgatgtaggtttgctatcattttttcaattgcagctgctgatgcacttaatcctttatgttctacagGCTCCTCTCAATAGCTGAGGAGGCCATGGGGGAGTTCCTTTCAAAGGCTAAGGGAACTGCTGTTGATTGGGTCCAGATTCCTGGGATGAAG
|||| || || ||| | | | | |||| |||| ||| | ||| |||| || || | | || | || | ||| | | | ||| ||||| | || || |||||| || | |||||||| |||||||||| || || ||| |||||||||||||||| ||||||||||||
gtaa-gtgaatcat------tctggccatctggagaaggattcttgttgcgtaaccttgccat----ttcaagactatc-ctaatcataataccattccaattcttgtttcagACTCCTTGCGATTGCAGAGGAGACCTTCACAGAGTTCCTCTCAAAGGCTACTGGGACAGCTATTGATTGGGTCCAGATGCCTGGGATGAAG
upper sequence: Vv13s0019g04320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G042250_T03 (Zea mays), 3'ss of exon 4
gtaatgttaaccatcagcaatattgacctctgtagaactccacttttgatgtaggtttgctatc---attttttcaattgcagctgctgatgcacttaatcctttatgttctacagGCTCCTCTCAATAGCTGAGGAGGCCATGGGGGAGTTCCTTTCAAAGGCTAAGGGAACTGCTGTTGATTGGGTCCAGATTCCTGGGATGAAG
|||| || || | | | | | | |||| |||| || | ||| |||| || | | | ||| || ||| | || |||| | | | ||| ||||| | || || |||||| || | |||||||| |||||||||| || || ||| |||||||||||||||| ||||||||||||
gtaa-gtgaatcgt------tctggccatctggagaaggatttttgttgcgtaaccttgccattgagactgtcctaatcatag-tgccatttca---aatcttgttt------cagACTCCTTGCGATTGCGGAGGAGACCTTCACAGAGTTCCTCTCAAAGGCTACTGGGACAGCTATTGATTGGGTCCAGATGCCTGGGATGAAG
upper sequence: Vv13s0019g04320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G60690.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaatgttaaccatcagcaatattgacctctgtagaactccacttttgatgtaggtttgctatcattttttcaattgcagctgctgatgcacttaatcctttatgttctacagGCTCCTCTCAATAGCTGAGGAGGCCATGGGGGAGTTCCTTTCAAAGGCTAAGGGAACTGCTGTTGATTGGGTCCAGATTCCTGGGATGAAG
||| | | || ||||| | | | || | ||||| ||| | | | || | || || ||| || | |||||||| || |||||| | ||| |||||||| || ||||||| |||||||||||||||||||| ||||| ||||||||||||
-------------------------------gtaaagtttcatttttggttttga---agtaacctttttctaatcttttttctttgcctaattgcttggttttggtct-tagATTGCTCTCAATCGCAGAGGAGACTTTGGCAGAGTTCCTATCCAAGGCTACAGGAACTGCTGTTGATTGGGTTCAGATGCCTGGGATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctatcattttttcaattgcagctgctgatgcacttaatcctttatgttctacagGCTCCTCTCAATAGCTGAGGAGGCCATGGGGGAGTTCCTTTCAAAGGCTAAGGGAACTGCTGTTGATTGGGTCCAGATTCCTGGGATGAAG
tcctttat CT-rich tract
attttttcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgttaaccatcagcaatattgacctctgtagaactccacttttgatgtaggtttgctatcattttttcaattgcagctgctgatgcacttaatcctttatgttctacagGCTCCTCTCAATAGCTGAGGAGGCCATGGGGGAGTTCCTTTCAAAGGCTAAGGGAACTGCTGTTGATTGGGTCCAGATTCCTGGGATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT