Sequence
atgc intronic sequence ATGC exonic sequencegtatgttcttgctctttatactagacatttattttgcatccatcatcctttttccattcactttgaaactcccaaacatagcaatagcattgatctctttgaatgattacagGACTTTGGTGATAGTATACCTGGACATGGTGGATTTACAGACAGAATGGACTGCCAG
Basic information
species | Glycine max |
transcript | GLYMA14G02210.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G02210.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os10g17990.1 (Oryza sativa), 3'ss of exon 9
gtatgttcttgctctttatactagacatttattttgcatccatcatcctttttccattcactttgaaactcccaaacatagcaatagcattgatctctttgaatgattacagGACTTTGGTGATAGTATACCTGGACATGGTGGATTTACAGACAGAATGGACTGCCAG
| ||||| || ||| ||| | ||| || || | ||| ||| | | | | || ||||| ||||||||||| |||||||| |||||||||||||| ||||| ||||| || ||
-------------------------------gtacgcatctattatcttttggaaaa-------aaaatatttcaatatcgaaatcttattcagtgtat--act--tttcagGATTTTGGTGATAGCATACCTGGCCATGGTGGATTTACTGACAGGATGGATTGTCAA
upper sequence: GLYMA14G02210.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G062416_T02 (Zea mays), 3'ss of exon 4
gtatgttcttgctctttatactagacatttattttgcatccatcatcctttttccattcact-ttgaaactcccaaacatagcaatagcattgatctctttgaatgattacagGACTTTGGTGATAGTATACCTGGACATGGTGGATTTACAGACAGAATGGACTGCCAG
| | | | ||| ||| | |||||| | | || | | | | | ||| | | ||||| ||||| || || |||||||| ||||||||||||||||| || |||||||||||
-------------------------------------gtgcttagtttgtttggaattatttgttgaaaatatgtatcaccttcaaaatctcactatgtttatacatt--cagGATTTTGGGGACAGCATACCTGGTCATGGTGGATTTACAGATAGGATGGACTGCCAA
upper sequence: GLYMA14G02210.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G452529_T02 (Zea mays), 3'ss of exon 9
gtatgttcttgctctttatactagacatttattttgcatccatca--tcctttttccattcactttgaaactcccaaacatagcaatagcattgatctctttgaatgattacagGACTTTGGTGATAGTATACCTGGACATGGTGGATTTACAGACAGAATGGACTGCCAG
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-----------------------------------gtatacaccacttcgttgtttgcatcaataatattgttttactcaaattgata-tatcttttttttacaaaaaatgtagGATTTTGGTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAA
upper sequence: GLYMA14G02210.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 8
gtatgttcttgctctttatactagacatttattttgcatccatcatcctttttccattcactttgaaactcccaaacatag--caatagcattgatctctttgaatgattacagGACTTTGGTGATAGTATACCTGGACATGGTGGATTTACAGACAGAATGGACTGCCAG
|| |||| | | | || || ||| | | | | | | | | | | ||| ||| ||| || | | ||| ||| ||||| |||||||| ||||| |||||||| ||||||||||||||| |||||||||||||||| || |||
gtccacccttgttttaaacac-agttgcttaaagttatactaatgtgaaatgagctccctatctccacctcacaacaataaattaaaaataaggatttctctgaatttttacagGATTTTGGAGATAGTATTCCTGGACATGGTGGAATTACAGACAGAATGGATTGTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcactttgaaactcccaaacatagcaatagcattgatctctttgaatgattacagGACTTTGGTGATAGTATACCTGGACATGGTGGATTTACAGACAGAATGGACTGCCAG
cattgat putative branch site (score: 4)
aatgatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttcttgctctttatactagacatttattttgcatccatcatcctttttccattcactttgaaactcccaaacatagcaatagcattgatctctttgaatgattacagGACTTTGGTGATAGTATACCTGGACATGGTGGATTTACAGACAGAATGGACTGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA