Sequence
atgc intronic sequence ATGC exonic sequencegtatctgctccaaacagttcagagctacacccttttggcttccatggaagtttcctcgcttattattcttattattattcagGGTATTCAGGATCAGATATGAAGAACTTGGTGAAGGATGCATCTATGGGCCCACTGAGAGAAGCTCTGAGGCAGGGCATAGAAATCACAAAGCTGAAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0068g02130.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM5G874082_T03 (Zea mays), 3'ss of exon 11
gtatctgctccaaacagttcaga--gctac-acccttttggcttccatggaa---------gtttcctcgctt---attattcttattattattcagGGTATTCAGGATCAGATATGAAGAACTTGGTGAAGGATGCATCTATGGGCCCACTGAGAGAAGCTCTGAGGCAGGGCATAGAAATCACAAAGCTGAAAAA
|| || | | || | | ||||| | | | | |||| | | | ||| |||| | || ||| |||| | |||| || |||||||| || ||||| ||||||||||| ||||| || ||||| ||||| ||||| ||||| | |||| | |||||| ||||||| | ||
gtttccatccaagcttcttaatattgctactatcttatcagctttgacgtgatcatactgaatttagctgctttaaacaatgcttgctatt-tccagGCTACTCAGGATCTGACATGAAAAACTTGGTGAAAGATGCCTCAATGGGACCACTAAGAGAGGCTCTTCAGACGGGCGTTGAAATCGCAAAGCTCAGCAA
upper sequence: Vv14s0068g02130.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA05G14440.1 (Glycine max), 3'ss of exon 10
---------gtatctgctc-caaacagttcagagct------acacccttttggcttccatgga---agtttcctcgcttattattcttattattattcagGGTATTCAGGATCAGATATGAAGAACTTGGTGAAGGATGCATCTATGGGCCCACTGAGAGAAGCTCTGAGGCAGGGCATAGAAATCACAAAGCTGAAAAA
| ||| | || |||| | || | | | |||| |||| || | || | | |||| | || || || | ||| |||||||||||||| ||||| ||||| ||||||||||| |||||||| || || ||||| ||| | || || || |||||||| |||||| |||||||
ttttttgaaaaaactgttttcacacagcactaagttttaaaaagaattcgttggtttccggtgattgatttgctttgcttttacttggtaacttt-tctagGTTATTCAGGATCAGACATGAAAAACTTAGTGAAGGATGCTTCTATGGGACCCCTAAGAGAGGCTTTAAGTCAAGGTATAGAAATTACAAAGTTGAAAAA
upper sequence: Vv14s0068g02130.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA19G18350.1 (Glycine max), 3'ss of exon 10
---------gtatctgctcc-aaacagttcagagct------acacccttttggcttccatgga---agtttcctcgcttattattcttattattattcagGGTATTCAGGATCAGATATGAAGAACTTGGTGAAGGATGCATCTATGGGCCCACTGAGAGAAGCTCTGAGGCAGGGCATAGAAATCACAAAGCTGAAAAA
| ||| | | |||| | || | | | |||| |||| || | || | | |||| | || || || | ||| |||||||||||||| ||||| || || ||||||||||| |||||||| || || ||||| ||| | | || || |||||||| |||||| |||||||
ttttgaaaaaaaactgtttttacacagccctaagttttaaaaagaattcgttggtttccggtgattgatttactttgcttttacttggtaacttt-tctagGTTATTCAGGATCAGACATGAAAAATTTAGTGAAGGATGCTTCTATGGGACCCCTAAGAGAGGCTTTAGGTCAAGGTATAGAAATTACAAAGTTGAAAAA
upper sequence: Vv14s0068g02130.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT3G27120.1 (Arabidopsis thaliana), 3'ss of exon 9
-------------------------------------------gtatctgctccaaacagttcagagc-tacaccctt----------ttggcttccatggaagtttcctcgcttattattctt---attattattcagGGTATTCAGGATCAGATATGAAGAACTTGGTGAAGGATGCATCTATGGGCCCACTGAGAGAAGCTCTGAGGCAGGGCATAGAAATCACAAAGCTGAAAAA
| | || || | ||| || || ||| || | | | || | || ||| | ||| | ||| | ||||||| || |||||||||||||||||| ||||||| |||||| ||||||| ||| | ||||||||||| | | |||||||| || || || |||| ||
gtaaattcatcataggaacttcagaaacacaataaatctctggatttttgatctttaaagtccaaagaacacaacccaaaaatgcaaatacacatttgcggccataaccaagctagcttttcattaaatttcactgcagGGTACTCGGGATCAGATATGAAGAACCTGGTGAAAGATGCAACTATGGGTCCATTAAGAGAAGCTCTCAAACGAGGCATAGATATAACTAACCTGACTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacccttttggcttccatggaagtttcctcgcttattattcttattattattcagGGTATTCAGGATCAGATATGAAGAACTTGGTGAAGGATGCATCTATGGGCCCACTGAGAGAAGCTCTGAGGCAGGGCATAGAAATCACAAAGCTGAAAAA
ttcttatt CT-rich tract
ttattattcttattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatctgctccaaacagttcagagctacacccttttggcttccatggaagtttcctcgcttattattcttattattattcagGGTATTCAGGATCAGATATGAAGAACTTGGTGAAGGATGCATCTATGGGCCCACTGAGAGAAGCTCTGAGGCAGGGCATAGAAATCACAAAGCTGAAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA