Sequence
atgc intronic sequence ATGC exonic sequence...tatgatggttaatgattgaatgagagtgtaattaacttaatattattatgattatataaaggtactaacgtgggggtaaattttggaaaatactgcacagGTTTTATGCGGCTGAGACACTATTGGCACTGGAGTATCTTCACATGATGGGAATAGTGTACAGGGATTTGAAGCCAGAGAATGTTCTTGTGAGGGAGGAT
Basic information
species | Glycine max |
transcript | GLYMA17G12620.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12620.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv11s0016g04910.t01 (Vitis vinifera), 3'ss of exon 1
--------------------------------------------------tatgatggttaatgat--tgaatgagagtgtaat--taacttaatattattatgattatataaaggtacta-acgtgggggta--aattttggaaaatactgc-acagGTTTTATGCGGCTGAGACACTATTGGCACTGGAGTATCTTCACATGATGGGAATAGTGTACAGGGATTTGAAGCCAGAGAATGTTCTTGTGAGGGAGGAT
|| || ||| ||| | | | || || ||| |||| || | | | | | || || | | | || | || | | ||| | ||||||||||||| || ||||| || |||| ||||||||||| ||||||||||| | || ||||| || | ||||| || ||||| || || || |||||
gtaagttttctttttacatatgtttgtttggagaaagggctcagaatgtgtagcattgttcatggtcttagaagaaagataaatgctaaccaaacgatgccgtt-tgccttgagtttaatatatgacagactactgacttagctacataaaaccacagGTTTTATGCTGCAGAGACTCTGGTGGCTCTGGAGTATCTCCACATGATGGGTGTTGTTTACAGAGACCTCAAGCCCGAAAATGTGCTCGTCAGAGAGGAC
upper sequence: GLYMA17G12620.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S66_253V6.1 (Physcomitrella patens), 3'ss of exon 3
-tatgat---ggttaatgattgaatgagagtg-taattaacttaatattattatgattatataaaggtactaacgtgggggtaaattttggaaaatactgcacagGTTTTATGCGGCTGAGACACTATTGGCACTGGAGTATCTTCACATGATGGGAATAGTGTACAGGGATTTGAAGCCAGAGAATGTTCTTGTGAGGGAGGAT
|||| | | | | | | ||| | |||| |||| |||| | || || | | ||| ||| | | | | |||| || || || ||||||| || || ||||||||||| || ||||||||||| | |||||| | || ||||| |||||||||||||| ||| |||| |||
tcatgactggagcaagtagtgggttacgagggataatattgaggatataatta-actcatggaataaccatgatttggtggtggacatgtgtcgacg----acagATTCTACGCTGCTGAGATCCTTTTAGCACTGGAGTACCTGCACATGATGGGCGTGGTGTACCGCGACTTGAAACCAGAGAATGTTCTCGTGCGGGAAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatgattatataaaggtactaacgtgggggtaaattttggaaaatactgcacagGTTTTATGCGGCTGAGACACTATTGGCACTGGAGTATCTTCACATGATGGGAATAGTGTACAGGGATTTGAAGCCAGAGAATGTTCTTGTGAGGGAGGAT
tactaac putative branch site (score: 0)
taaattttggaaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgatggttaatgattgaatgagagtgtaattaacttaatattattatgattatataaaggtactaacgtgggggtaaattttggaaaatactgcacagGTTTTATGCGGCTGAGACACTATTGGCACTGGAGTATCTTCACATGATGGGAATAGTGTACAGGGATTTGAAGCCAGAGAATGTTCTTGTGAGGGAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- -gatggtt
- - - - - - - - -gaatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtggggg