Sequence
atgc intronic sequence ATGC exonic sequence...tatagacagagaattaggcattgagattgatactttgcaccttttctggagctgtttactcttttcttcttctgttaatctaaagagtcccttttcctagGGAAACAGTGTCCTGGCAGATTCTGGAACAGAGCAGCTTGAATTTATTGCTTTATCTCAAAGGACAAGGGACCCCAAGTACCAGAAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g00140.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G06600.1 (Glycine max), 3'ss of exon 6
--tatagacagagaattaggcattgagattgatactttgcaccttttctggagctgtttactcttttcttcttctgttaatctaaagagtcccttttcctagGGAAACAGTGTCCTGGCAGATTCTGGAACAGAGCAGCTTGAATTTATTGCTTTATCTCAAAGGACAAGGGACCCCAAGTACCAGAAGAAG
|| | | | | | | || | || | | || | | || || | | | | ||||| | | || || || ||||||||||||| | || || |||||||| ||||||| ||||||||||||||| | ||||||||||||| |||||||||||| || | |||
gcaatgattttcaagatttgtctagcgcacccacctatagac-tatagtgaaatttttgtagctcgttctatgttcttaat-tgatcgttctctgttactagGGAAACAGTATTCTTGCGGATTCTGGTTCAGAGCAACTTGAATTTATTGCTCTCTCTCAAAGGACAAATGACCCCAAGTACAAGGAAAAG
upper sequence: Vv11s0052g00140.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G00470.1 (Glycine max), 3'ss of exon 6
tatagacagagaattaggcattgagattgatac-tttgcaccttttctggagctgtttactcttttcttcttctgttaatctaaagagtcccttttcctagGGAAACAGTGTCCTGGCAGATTCTGGAACAGAGCAGCTTGAATTTATTGCTTTATCTCAAAGGACAAGGGACCCCAAGTACCAGAAGAAG
| || || | || | | | | ||| | | | | || | || || | | | ||||| | | || || | ||||| ||||||| | || | |||||||| ||||||| ||||||||||||||| | |||||| |||||| |||||||||||| || | |||
tttaagcaataattttcaaaatttgtctagtacacctatagactatagtgaatttttgtagctcactctatgttcttaat-tgatcgttctctatcactagGAAAACAGTATTCTTGTGGATTCTGGTTCAGAGCAACTTGAATTTATTGCTCTCTCTCAACGGACAAATGACCCCAAGTACAAGGAAAAG
upper sequence: Vv11s0052g00140.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G21160.1 (Arabidopsis thaliana), 3'ss of exon 6
tatagacagagaattaggcattgagattgatactttgcaccttttctggagctgtttactcttttcttc---ttctgttaatc--taaagagtcccttttcctagGGAAACAGTGTCCTGGCAGATTCTGGAACAGAGCAGCTTGAATTTATTGCTTTATCTCAAAGGACAAGGGACCCCAAGTACCAGAAGAAG
| | || | | || | | || | | ||| | | || || ||||| | |||| || ||| || | | | ||| | |||||| ||||| | || ||||||||||| || |||||||||||||||||||| | || || |||||| ||||||| || || ||| | |||
tttcactagcaagctcatgtttaatgtggaa--tgggtaccatct---gatctatttacatatgtctttcggtttagttgattgtttacttctttcttgttttagGGAGACAGTATTCTTGCAGATTCTGGTACTGAGCAGCTTGAATTTATTGCCCTTTCCCAGAGGACAGGGGACCCAAAATATCAGCAAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctggagctgtttactcttttcttcttctgttaatctaaagagtcccttttcctagGGAAACAGTGTCCTGGCAGATTCTGGAACAGAGCAGCTTGAATTTATTGCTTTATCTCAAAGGACAAGGGACCCCAAGTACCAGAAGAAG
atctaaa putative branch site (score: 3)
tcccttttcct putative PPT
ttaatctaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatagacagagaattaggcattgagattgatactttgcaccttttctggagctgtttactcttttcttcttctgttaatctaaagagtcccttttcctagGGAAACAGTGTCCTGGCAGATTCTGGAACAGAGCAGCTTGAATTTATTGCTTTATCTCAAAGGACAAGGGACCCCAAGTACCAGAAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- -agacaga
- - - - - - - - - - - - - - - - - -tgcacct
- - - - - - - - - - - - - - - - - - - - - tttctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagagt