Sequence
atgc intronic sequence ATGC exonic sequence...atgggatgacatcgaaaaattcctggtttgttgaatataaatctctggcaaaaatttccatgaggatatctggtgactttaactcattgtcaaaatgcagGTTGTGTATTTTGTGAACTCTGGATCAGAAGCCAATGAATTAGCAATGCTGATGGCACGACTATATAGTGGTAATCTTGGTATGATTTCCTTAAGAAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g07570.1 (Oryza sativa), 3'ss of exon 2
atgggatgacatcgaaaaattcctggtt-tgttgaatataaatctctggcaaaaatttccatgaggatatctggtgactttaactcattgtcaaaatgcagGTTGTGTATTTTGTGAACTCTGGATCAGAAGCCAATGAATTAGCAATGCTGATGGCACGACTATATAGTGGTAATCTTGGTATGATTTCCTTAAGAAATG
| | || | || | | | ||| | | |||| | || |||| |||| ||| || || | || | ||||||| |||||||||||||| ||||| | ||||| |||||| | || ||||||||||| || || || ||||| ||||| ||||||| | || |||||||
gtcaaa-gatactttgaagtcgatcatgatgtaaattgtaaaacaact-cattgatttgcatggaaataattg----tttcatatctgaggatgcctgcagGTGGTGTATTTTGTGAATTCTGGGACTGAAGCGAATGAACTGGCGATGCTGATGGCTCGGCTGTACAGTGGGAATCTCAATATGATTGCATTGAGAAATG
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G124353_T01 (Zea mays), 3'ss of exon 2
atgggatgacatcgaaaaattcctggtttgttgaatataaatctctggc-aaaaatttccatgaggatatctggtgactttaactcattgtcaaaatgcagGTTGTGTATTTTGTGAACTCTGGATCAGAAGCCAATGAATTAGCAATGCTGATGGCACGACTATATAGTGGTAATCTTGGTATGATTTCCTTAAGAAATG
| || ||| | |||| | ||| | | | |||| | ||| | ||||||||| |||||||||||| ||||| | ||||| ||||| || |||||| ||||||| || || |||||||| ||||| ||||| || | | |||||||
------------------------------gtaaaagtaa-tgtctgtctgggtgcagtcataacacgcaccatttcatttatgtttttgg-atcctgcagGTTGCGTATTTTGTGAATTCTGGGACCGAAGCGAATGAGTTGGCAATGTTGATGGCCCGGCTGTATAGTGGGAATCTCAGTATGGTTGCGCTCAGAAATG
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G14850.2 (Glycine max), 3'ss of exon 2
atgggatgacatcgaaaaattcctggtttgttgaatataaatctctggcaaaaatttccatgaggatatctggtgac--tttaactcat--tgtcaaaatgcagGTTGTGTATTTTGTGAACTCTGGATCAGAAGCCAATGAATTAGCAATGCTGATGGCACGACTATATAGTGGTAATCTTGGTATGATTTCCTTAAGAAATG
| ||| || | || | | || || || ||| | | || || | || || || |||| || || ||| | | ||| |||||||||| |||||||| || ||||| |||||||| ||||||||||||||| ||||||| || |||||| ||||| ||||||||||||||| || |||||||
-agaaatgtaatgttcagttttttaatctggc---tagaattcttttgacaaggaatcaaggatcctaattgatgacagttaaaaacatgattttaaattgcagGTTGTTTATTTTGTAAATTCTGGTTCAGAAGCAAATGAATTAGCAATGATGATGGCCCGTTTATATACTGGTAGTCTTGGTATGATTTCTTTGAGAAATG
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G31630.1 (Glycine max), 3'ss of exon 2
atgggatgacatcgaaaaattcctggtttgttgaatataaatctct---ggcaaaaatttccatgaggatatctggtgac--tttaactcat--tgtcaaaatgcagGTTGTGTATTTTGTGAACTCTGGATCAGAAGCCAATGAATTAGCAATGCTGATGGCACGACTATATAGTGGTAATCTTGGTATGATTTCCTTAAGAAATG
| | | | | ||| || || || ||| | ||| | ||| || || || |||| || || ||| | | ||| |||||||||| |||||||| || ||||| |||||||| ||||||||||||||| ||||||| || |||||| ||||||||| ||||||||||| || |||||||
------ttgctcttagtgttcagttttttaatgtggctagatttcttttgacaaggaaa-ccaggatcctaattgatgacagttaaaaacatgattttaaattgcagGTTGTTTATTTTGTAAATTCTGGTTCAGAAGCAAATGAATTAGCAATGATGATGGCCCGTTTATATACTGGTAATCTCGGTATGATTTCTTTGAGAAATG
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G36000.1 (Glycine max), 3'ss of exon 2
atgggatgacatcgaaaaattcctgg-tttgttgaatataaatctctggcaaaaatttccatgaggatatctggtgactttaactcattg--tcaaaatgcagGTTGTGTATTTTGTGAACTCTGGATCAGAAGCCAATGAATTAGCAATGCTGATGGCACGACTATATAGTGGTAATCTTGGTATGATTTCCTTAAGAAATG
| || | ||| || ||| | | | | | | | |||| | || ||| | || || || |||| | | | | |||||||||| |||||||| || ||||| ||||| || ||||| || || ||||||||||| || |||| | ||||||| | ||||||||||||||||| ||||
tttcattggtggaaagcaatgtttgactttatagtgtgctagattattcaaccaattgcaatatgga-acatgatg--ttcaactaagcaatttatattgcagGTTGTTTATTTTGTAAATTCTGGTTCAGAGGCAAATGACTTGGCGATGCTGATGGCCCGTTTATACACTGGTAATATGGGTATGATTTCCTTAAGGAATG
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G02440.1 (Glycine max), 3'ss of exon 2
-atgggatgacatcgaaaaattcctggtttgttgaatataaatctctggcaaaaatttccatgaggatatctggtgactttaactcattg--tcaaaatgcagGTTGTGTATTTTGTGAACTCTGGATCAGAAGCCAATGAATTAGCAATGCTGATGGCACGACTATATAGTGGTAATCTTGGTATGATTTCCTTAAGAAATG
|| || ||||| || | ||| ||| || | | || | | | ||||| || |||| | | | | | |||||||| |||||| | || ||||| ||||| || ||||| || || ||||||||||| || |||| | ||||||| | ||||||||||||||||| ||||
aatttgagattgctgaaaagcaa-tgttcagttttatagtgtgctagatttcattcattcaatatggaacatggtg--ttcaactaagcaatttatattacagGTTGTTTATTTTTTAAATTCTGGTTCAGAGGCAAATGACTTGGCGATGCTGATGGCCCGTTTATACACTGGTAATATGGGTATGATTTCCTTAAGGAATG
upper sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G39660.1 (Arabidopsis thaliana), 3'ss of exon 2
atgggatgacatcgaaaaattcctggtttgttgaatataaatc-tctggcaaaaatttccatgaggatatctggtgactttaac-----tcattgtcaaaatgcagGTTGTGTATTTTGTGAACTCTGGATCAGAAGCCAATGAATTAGCAATGCTGATGGCACGACTATATAGTGGTAATCTTGGTATGATTTCCTTAAGAAATG
| | | || | | | | ||| | | | | || | || | | | | | | | | | || | |||||||||||||| |||||||| ||||| |||||||| ||||| |||||||| ||||||| | || || | ||||| |||| ||||||||||| |||||||
--------gtacttgagagttt-taaacaaacaagtctgaatgatgtagttaggtttctcttgttggtttatcgaggaatcagcatgctctatgatttggatgcagGTTGTGTACTTTGTGAATTCTGGCTCAGAAGCTAATGAGCTAGCAATGATGATGGCTAGGCTTTACACTGGTAGCCTTGAGATGATTTCCTTGAGAAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggcaaaaatttccatgaggatatctggtgactttaactcattgtcaaaatgcagGTTGTGTATTTTGTGAACTCTGGATCAGAAGCCAATGAATTAGCAATGCTGATGGCACGACTATATAGTGGTAATCTTGGTATGATTTCCTTAAGAAATG
ctttaac putative branch site (score: 3)
aaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgggatgacatcgaaaaattcctggtttgttgaatataaatctctggcaaaaatttccatgaggatatctggtgactttaactcattgtcaaaatgcagGTTGTGTATTTTGTGAACTCTGGATCAGAAGCCAATGAATTAGCAATGCTGATGGCACGACTATATAGTGGTAATCTTGGTATGATTTCCTTAAGAAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - -gaaaaat
- - - - - - - - - - -cctggtt
- - - - - - - - - - - - - - - - -aatataaa
- - - - - - - - - - - - - - - - - - - - - - - -gcaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aactcat