Sequence
atgc intronic sequence ATGC exonic sequence...agttcattataatcagggtactggggactccatattggtttgacatgctaaactaaccatagtttgtatctgttatgaacttaatgtatgtaataaacagGTCAAAGTTTGGTGCACAAACCAGGAGGCTAGCGTTCTTAACATTGACATGAAAGCAAATATATGTTGTGTCAAGTATAATCCTGGATCTAGCATTTATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G126795_T02 (Zea mays), 3'ss of exon 11
agttcattataatcagggtactggggactcca-tattggtttg-acatgctaaactaaccatagtttgtatctgttatgaacttaatgta----tgtaataaacagGTCAAAGTTTGGTGCACAAACCAGGAGGCTAGCGTTCTTAACATTGACATGAAAGCAAATATATGTTGTGTCAAGTATAATCCTGGATCTAGCATTTATA
| | ||| ||| ||| | | ||||||| | | || | ||| | | | || || || || ||| ||||| ||||| ||||||||||| || || || ||||| | || ||||| |||||||||||||| |||| || || ||||||||||| || ||| | |||
----cgatgcaat--aggtggaacccactaaaacagtggtttgcagcttcttgttctattataatgcttgtgcaatactaatggaaggtggtgctgtgtatggcagGTGAAAGTGTGGTGCACAAAACAAGAAGCAAGCGTGATCAATATTGATATGAAAGCAAATATTTGTTCGGTTAAATATAATCCTGGGTCAAGCTTCTATG
upper sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G43540.2 (Glycine max), 3'ss of exon 9
agttcattataatcagggtactggggactccatattggtttgacatgctaaactaaccatagtttgtatctgttatgaacttaatgtatgtaataaacagGTCAAAGTTTGGTGCACAAACCAGGAGGCTAGCGTTCTTAACATTGACATGAAAGCAAATATATGTTGTGTCAAGTATAATCCTGGATCTAGCATTTATA
| |||| | | || | | | | | || | || | | | | |||| | ||| | | | | | | | ||||||||| |||||||||| || ||||| ||||| ||||| || || |||||||||||||| |||||||||||||| ||||||||||||||| ||| |||||
tttgcattttgcttagtcaaatttaaattttcttggcgtggtatctgttgtatgattgaaagttactgagctaaatgtaatgtgtcttttctttgagcagGTCAAAATTTGGTGCACTAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGTTGTGTCAAATATAATCCTGGATCTGGCAATTATA
upper sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA14G05430.1 (Glycine max), 3'ss of exon 9
agttcattataatcagggtactggggactccatattggtttgacatgctaaactaaccatagttt---gtatctgttatgaacttaatgtatgtaa----taaacagGTCAAAGTTTGGTGCACAAACCAGGAGGCTAGCGTTCTTAACATTGACATGAAAGCAAATATATGTTGTGTCAAGTATAATCCTGGATCTAGCATTTATA
|| || ||| | | | | || ||| ||| |||| || || || || || | | || |||||| | | | | ||||||||| ||||||| ||||| ||||| ||||| ||||| || || |||||||||||||| ||||| |||||||| ||||||||||||||| ||| |||||
-----tttggcattttggt--tagtcaattcaaattttcttggcatggtatctgttgtatgattgaaagttattgatgtaaatgtaatgtctcttgtctttgagcagGTCAAAATTTGGTGTACAAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATA
upper sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G32950.1 (Arabidopsis thaliana), 3'ss of exon 9
agttcattataatcag-ggtactggggactccatattggtttgacatgctaaactaaccatagtttgtatctgttatgaacttaatgtatgtaataaacagGTCAAAGTTTGGTGCACAAACCAGGAGGCTAGCGTTCTTAACATTGACATGAAAGCAAATATATGTTGTGTCAAGTATAATCCTGGATCTAGCATTTATA
|| | | | ||| || | ||| | || || || ||| | || | | | ||| ||| | ||||| |||||||||||||| | ||||| || || || |||| ||||| ||||||||||| ||||||||||||||||| |||||||| || |||| || |
-tttaagtcaattcactactagttaatcctcaaccatgcattattgcatctgttaaatcatgtctcatagattaaccaattgtgctgtgtgtttgatccagGTTAAAGTTTGGTGCACGAGGCAGGAAGCAAGTGTGATTAATATTGATATGAAAGCAAACATATGTTGTGTCAAGTACAATCCTGGCTCAAGCAACTACA
upper sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S135_17V6.1 (Physcomitrella patens), 3'ss of exon 9
-----------------------------------------------agttcattataatcagggtactggggactccatattggtttga-catgctaaactaaccatagtttgtatctgttatgaacttaatgtatgtaataa---acagGTCAAAGTTTGGTGCACAAACCAGGAGGCTAGCGTTCTTAACATTGACATGAAAGCAAATATATGTTGTGTCAAGTATAATCCTGGATCTAGCATTTATA
|||| | | ||| | | | |||| | || || || | | | | || | || || | ||| | | ||||| | ||||| || | |||||||| | || ||| | ||||| | || || |||||||| |||||||| || ||||| ||||||||||||||||| |||| |||
gtaacctgttgaaatctggtgaacttaatcactcttgtacttgatgcggttc-tgtttttcaagctttttcaaactc-aggttatttggagttttccgcatcatgtttaatatgcggttgatccgaaatgtttttatgttactgtttgcagGTGAAGATATGGTGCACGAGGCAAGAGTCAAGCGTGATAAATATAGACATGAAGGCAAATATTTGCTGTGTGAAGTATAATCCTGGATCAAGCAGCTATG
upper sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ20512 (Selaginella moellendorffii), 3'ss of exon 9
agttcattataatcagggtactggggactccatattggtttgacatgctaaactaaccatagtttgtatctgttatgaacttaatgtatgtaataaacagGTCAAAGTTTGGTGCACAAACCAGGAGGCTAGCGTTCTTAACATTGACATGAAAGCAAATATATGTTGTGTCAAGTATAATCCTGGATCTAGCATTTATA
|| | | || | || || ||| | | | ||||||||| | |||||||| | |||||| | || || || |||||||||||||| ||||| || || |||||||| || ||||| |||||||||| || |
--------------------------------------------gtgttttattattacttacacacccgaattccctgtttg-tgtttttgacgcacagGTCAAGCTGTGGTGCACCAGGCAGGAGACAAGTGTCCTGAACATTGACATGAAGGCAAACATTTGCTGTGTCAAATACAATCCCGGATCTAGCAATTTTG
upper sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ28584 (Selaginella moellendorffii), 3'ss of exon 9
agttcattataatcagggtactggggactccatattggtttgacatgctaaactaaccatagtttgtatctgttatgaacttaatgtatgtaataaacagGTCAAAGTTTGGTGCACAAACCAGGAGGCTAGCGTTCTTAACATTGACATGAAAGCAAATATATGTTGTGTCAAGTATAATCCTGGATCTAGCATTTATA
|| || ||| || || ||| | || ||||| ||| | | | ||||||||| | |||||||| | |||||| | || || || |||||||||||||| ||||| || || |||||||| || ||||| |||||||||| || |
-------------------------------gtagtgttttattattacttacacacccgaattca---ctgttt--------gtgtttttgacgcacagGTCAAGCTGTGGTGCACCAGGCAGGAGACAAGTGTCCTGAACATTGACATGAAGGCAAACATTTGCTGTGTCAAATACAATCCCGGATCTAGCAATTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctaaactaaccatagtttgtatctgttatgaacttaatgtatgtaataaacagGTCAAAGTTTGGTGCACAAACCAGGAGGCTAGCGTTCTTAACATTGACATGAAAGCAAATATATGTTGTGTCAAGTATAATCCTGGATCTAGCATTTATA
ttaatgtatgtaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttcattataatcagggtactggggactccatattggtttgacatgctaaactaaccatagtttgtatctgttatgaacttaatgtatgtaataaacagGTCAAAGTTTGGTGCACAAACCAGGAGGCTAGCGTTCTTAACATTGACATGAAAGCAAATATATGTTGTGTCAAGTATAATCCTGGATCTAGCATTTATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - -gactcca
- - - - - - - - - - - - - - - - - -tggtttg
- - - - - - - - - - - - - - - - - - - - - acatgct
- - - - - - - - - - - - - - - - - - - - - - - - -aaactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgaac