Sequence
atgc intronic sequence ATGC exonic sequence...gtacttcttgatttatactatttatattttttccttgaggtgctgtttagttctattgtttaatatgactaacaaaaaatttccatgcatattcatgcagTAAGGATGTCAGTACAGTGAAGAAACTTGTGCATGACTCTGTGACCTGCCAATTATCCTCTTCTCTTCGTCCTCATGATGCAGTTTCTGCCTTGGGTCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0037g00730.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G36800.2 (Glycine max), 3'ss of exon 1
gtacttcttgatttatactatttatattttttccttgaggtgctgtttagttc-tattgtttaatatgactaacaaa--aaatttccatgcatattcatgcagTAAGGATGTCAGTACAGTGAAGAAACTTGTGCATGACTCTGTGACCTGCCAATTATCCTCTTCTCTTCGTCCTCATGATGCAGTTTCTGCCTTGGGTCCT
| | | ||||| | || | | || | | | | ||| |||| | | || || | ||| | |||| |||| ||| ||||| |||||||| | || || |||||||| || |||| | | | ||| |||||| ||||| || || |||||||||||||||||||| ||||||||||||
-tgtaattcaaattatatttcttttgtcttctgtgatattttcataatagcaaatattatcca-tacagcttataaattatattttcatggg-atttctgcagCAAGGATGTTAACACTGTAAAGAAACTGGTAGATGATTGTCTATCCTCCCAATTGTCCTCCTCACTCCGTCCTCATGATGCAGTTTCCGCCTTGGGTCCT
upper sequence: Vv11s0037g00730.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G07920.2 (Glycine max), 3'ss of exon 3
gtacttcttgatttatactatttatattttttccttgaggtgctgtttagttctattgtt--taatatgactaacaaa--aaatttccatgcatattcatgcagTAAGGATGTCAGTACAGTGAAGAAACTTGTGCATGACTCTGTGACCTGCCAATTATCCTCTTCTCTTCGTCCTCATGATGCAGTTTCTGCCTTGGGTCCT
| | | | ||||| | || | | || | | || | | | | || | |||| | || | || | |||| |||| |||| ||||| |||||||| | || || |||||||| || |||| | | | ||| |||||| ||||| || || |||||||||||||||||||| ||||||||||||
-tgcaattcaacttatatttcttttgtcttctgc--gatattttcatcatatcaaatgttatcctcacagcttatgaattatattttcatg-gtatttctgcagCAAGGATGTTAACACTGTAAAGAAACTGGTAGATGATTGTCTATCCTCCCAATTGTCCTCCTCACTCCGTCCTCATGATGCAGTTTCAGCCTTGGGTCCT
upper sequence: Vv11s0037g00730.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G36800.1 (Glycine max), 3'ss of exon 3
---------gtacttcttgatttatactatttatattttttcct-tgaggtgctgtt-tagttctattgttta---atatgactaacaaa--aaatttccatgcatattcatgcagTAAGGATGTCAGTACAGTGAAGAAACTTGTGCATGACTCTGTGACCTGCCAATTATCCTCTTCTCTTCGTCCTCATGATGCAGTTTCTGCCTTGGGTCCT
| | | | ||| | | ||| | | |||| || | || | | | | || | | ||| ||| || | ||| | |||| |||| ||| ||||| |||||||| | || || |||||||| || |||| | | | ||| |||||| ||||| || || |||||||||||||||||||| ||||||||||||
gtacttattgaatgttgtaattcaaattatatttcttttgtcttctgtgatattttcataatagcaaatattatccatacagcttataaattatattttcatggg-atttctgcagCAAGGATGTTAACACTGTAAAGAAACTGGTAGATGATTGTCTATCCTCCCAATTGTCCTCCTCACTCCGTCCTCATGATGCAGTTTCCGCCTTGGGTCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttagttctattgtttaatatgactaacaaaaaatttccatgcatattcatgcagTAAGGATGTCAGTACAGTGAAGAAACTTGTGCATGACTCTGTGACCTGCCAATTATCCTCTTCTCTTCGTCCTCATGATGCAGTTTCTGCCTTGGGTCCT
gactaac putative branch site (score: 1)
tattgtttaatatgac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttcttgatttatactatttatattttttccttgaggtgctgtttagttctattgtttaatatgactaacaaaaaatttccatgcatattcatgcagTAAGGATGTCAGTACAGTGAAGAAACTTGTGCATGACTCTGTGACCTGCCAATTATCCTCTTCTCTTCGTCCTCATGATGCAGTTTCTGCCTTGGGTCCT
- -cttcttg
- - - - - - - - - - - - - - - ttccttg
- - - - - - - - - - - - - - - - - - - - tgctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatgca