Sequence
atgc intronic sequence ATGC exonic sequence...cttttccaaattatagaaaagtgatgatggttttaattgaaatgactaagacactatctattgattttattacctacttgttaaaagtttattgtttcagAAGCTTCAATCTTGGTTTCTACTTCCAAATGGAAACTGGGAGCTGGGCAAGATATTGTCTACTTCAGGGACTGAGACTGTTATTTCACTGCCTGAGGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 2
cttttccaaattatagaaaagtgatgatggttttaattg-aaatgactaagacactatctat---tgattttattacctacttgttaa--aagtttattgtttcagAAGCTTCAATCTTGGTTTCTACTTCCAAATGGAAACTGGGAGCTGGGCAAGATATTGTCTACTTCAGGGACTGAGACTGTTATTTCACTGCCTGAGGGAA
| ||| ||| | | | ||| | || | || | || ||| | ||| | ||| | | ||| | | ||||| | | |||||||| ||||| |||||||||| |||||| ||||| || ||||||||||| |||||| | | ||||| || | ||| || | ||||||||| ||| || |
----ttcaagacatatctttttagt--ttatttgagttatagatcaatactacatagtttataatttgctttgtcttgtccttactgatgaagttcactatttcagAAACTTCAGTCTTGGTTTCAACTTCCGAATGGGAATTGGGAGCTGGGGAAGATAATAACAACTTCTGGAAATGAATCTATCATTTCACTGTTTGACGGGA
upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 2
------------------------cttttccaaattatagaaaagtgatgatgg--ttttaattgaaatgactaagacactat--ctattgattttattac---------ctacttgttaaaagtttattgtttcagAAGCTTCAATCTTGGTTTCTACTTCCAAATGGAAACTGGGAGCTGGGCAAGATATTGTCTACTTCAGGGACTGAGACTGTTATTTCACTGCCTGAGGGAA
|| | | | | || ||| || | | | ||| | | ||| || | | |||| | | | || | ||||| | || ||| || ||||||||| ||| |||||||||||| ||||||||||| || ||||||||||| ||||||||| ||| ||||||| || |||| || ||||
gtattccttagatttacattttgtgattctcgaggcttgagggttttgtggtggatttcttgctaatttgagaataaacttattgcttctaaagttataagaatatgggatgaaattttgacagtttttaactttagATACTGCAATCTTGGATTCAACTTCCAAATGGTAACTGGGAGCTTGGGAAGATATTGTCAACTTCAGGGGAGGAGTCTGTTATATCTTTGCCCGAAGGAA
upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 2
----------------------------------cttttccaaattatagaaaagtgatgatggttttaattgaaatgacta-agacactatctattgattttattacctacttg--ttaaaagtttattgtttcagAAGCTTCAATCTTGGTTTCTACTTCCAAATGGAAACTGGGAGCTGGGCAAGATATTGTCTACTTCAGGGACTGAGACTGTTATTTCACTGCCTGAGGGAA
| | | | | ||| || | ||| ||| | || | | ||| | | | | || | | | | | || ||| |||||| || |||| |||| | | ||||||||| || |||||||||||||| |||||| |||| |||||||| ||| ||||||| | |||||||||
gtattgttaaggtctagttgttttgttgcatggccatgttgagactattagttaggatgaaatgttgtaacaaacatcagaggaaacattccttttcttatgtagaggcgattaaactgacaacttttcgatttcagGTACTGCAATTTTGGGTCCAACTTCCAAACGGTAACTGGGAGCTGGGAAAGATAATGTCAACTTCAGGAGAAGAGTCTGTTATCGTGGTAACTGAGGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaagacactatctattgattttattacctacttgttaaaagtttattgtttcagAAGCTTCAATCTTGGTTTCTACTTCCAAATGGAAACTGGGAGCTGGGCAAGATATTGTCTACTTCAGGGACTGAGACTGTTATTTCACTGCCTGAGGGAA
tattgat putative branch site (score: 3)
ttgtttc putative PPT
tatctattgattttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttttccaaattatagaaaagtgatgatggttttaattgaaatgactaagacactatctattgattttattacctacttgttaaaagtttattgtttcagAAGCTTCAATCTTGGTTTCTACTTCCAAATGGAAACTGGGAGCTGGGCAAGATATTGTCTACTTCAGGGACTGAGACTGTTATTTCACTGCCTGAGGGAA
- - -ccaaatt
- - - - - - -tagaaaa
- - - - - - - - - - - - tgatggt
- - - - - - - - - - - - - - - - - aattgaa
- - - - - - - - - - - - - - - - - - - - - - - -aagacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctactt