Sequence
atgc intronic sequence ATGC exonic sequence...tagaaatttcatcgaactatgtacttattctatctgtatttaccatttcttatgagttatgagccatatgctaatgtgattttcccatcatcaattgcagTGTTAGTGTGTTTGGCGTCTCAGCAGAATCAATGCAGTGTTCCTATGATTCAAAAGGAAACAGTGTCCCCACTATTCTACTGCTAATGCAAGAGCGATTA
Basic information
species | Glycine max |
transcript | GLYMA19G39280.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G39280.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G03100.1 (Arabidopsis thaliana), 3'ss of exon 1
tagaaatttcatcgaactatgtacttattctatctgtatttaccatttcttatgagttatgagc--catatgctaatgtgattttcccatcatcaattgcagTGTTAGTGTGTTTGGCGTCTCAGCAGAATCAATGCAGTGTTCCTATGATTCAAAAGGAAACAGTGTCCCCACTATTCTACTGCTAATGCAAGAGCGATTA
| ||| || || | | | || | || | | | | ||| | ||| | ||| | ||| || | | || ||| ||||||| ||||||||||| || || || ||||| ||||| ||||| |||||| ||||||||||||||||| || |||||| | || ||||| ||| || |
--gtaatctctcaaaatttcactactgcttta---gaatctgaaactggatctgaaattgtagcttcttatttaatggtggattctctttgattaat-gcagTGTGAGTGTGTTTGGTGTATCGGCGGAATCGATGCAATGTTCTTATGATGAGAAAGGAAACAGTGTCCCAACGATTCTATTACTTATGCAGGAGAGACTC
upper sequence: GLYMA19G39280.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0104g01120.t01 (Vitis vinifera), 3'ss of exon 1
tagaaatttcatcgaactatgtacttattctatctgtatttaccatt---tcttatgagttatgagccatatgctaa-tgtgattttcccatcatcaattgcagTGTTAGTGTGTTTGGCGTCTCAGCAGAATCAATGCAGTGTTCCTATGATTCAAAAGGAAACAGTGTCCCCACTATTCTACTGCTAATGCAAGAGCGATTA
| ||| | ||| | | | |||||| | || ||| | || ||| || || | || | || | | | || | || ||| |||| ||||||||||||||||| || ||||||||||| ||||| ||||||||||||||||| || |||||||||||||| |||||||||| ||| | |||
--tagattctactgaattccactttattcctatctctcctttggattcaattttctgaattttggttgagataccaacttttgtgtttatgtaatt--ttgtagTGCAAGTGTGTTTGGCGTCTCTGCGGAATCAATGCAATGTTCTTATGATTCAAAAGGAAATAGCGTCCCCACTATTCTCTTGCTAATGCAGGAGAGGTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcttatgagttatgagccatatgctaatgtgattttcccatcatcaattgcagTGTTAGTGTGTTTGGCGTCTCAGCAGAATCAATGCAGTGTTCCTATGATTCAAAAGGAAACAGTGTCCCCACTATTCTACTGCTAATGCAAGAGCGATTA
tgctaat putative branch site (score: 2)
tgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagaaatttcatcgaactatgtacttattctatctgtatttaccatttcttatgagttatgagccatatgctaatgtgattttcccatcatcaattgcagTGTTAGTGTGTTTGGCGTCTCAGCAGAATCAATGCAGTGTTCCTATGATTCAAAAGGAAACAGTGTCCCCACTATTCTACTGCTAATGCAAGAGCGATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - -tatgtac
- - - - - - - - - - - - - - -ctatctg
- - - - - - - - - - - - - - - - - - - - - ccatttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctaatg