Sequence
atgc intronic sequence ATGC exonic sequence...tttctgactcgacagataccctgggatcaccccgaaaaaagaaaaacatgtactaattttctgtcatgttatgactttgtcttgaatatggattttgcagAATGGAAGAACTTGCTTGGGGGATTTTGTTTACCGTTACATAACATCAGATCAATTCTCCCCAGAGTGCCTTCTTGATTGCTTAGACATATCCTCTGAAC
Basic information
species | Glycine max |
transcript | GLYMA11G34690.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G34690.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G103412_T01 (Zea mays), 3'ss of exon 1
tttctgactcgacagatacc-ctgggatcacc-ccgaaaaaagaaaaacatgtactaattttct----gtca--tgttatgactttgtcttgaatatggattttgcagAATGGAAGAACTTGCTTGGGGGATTTTGTTTACCGTTACATAACATCAGATCAATTCTCCCCAGAGTGCCTTCTTGATTGCTTAGACATATCCTCTGAAC
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----gtataccatgcattcttccgcaatcagaactcatgaatgtgcagtgtccacagaatttcttagtgtcagttctcaacatgttgcattaaacttgatttt---agAATGGACGGTCAACCTTAGGTGATATCATATACCGCTACATAACCTCTGATCAGTTCTCCCCTGAGTGCCTTCTTGATTGCCTGGATTTGTCCATGGAGT
upper sequence: GLYMA11G34690.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G065423_T01 (Zea mays), 3'ss of exon 4
tttctgactcgacagatacc-ctgggatcacc-ccgaaaaaagaaaaacatgtactaattttctgtcatgttatgactt--tgtcttgaatatggatt--ttgcagAATGGAAGAACTTGCTTGGGGGATTTTGTTTACCGTTACATAACATCAGATCAATTCTCCCCAGAGTGCCTTCTTGATTGCTTAGACATATCCTCTGAAC
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----gtataccatgcattcttccgcaatcagaactcatgaatgtgcagtgtccacggaatttct-cagtgtcagttctcaacatgttgcattcaacttgatttcagAATGGACGGTCAACCTTAGGTGATATCATATACCGCTACATAACCTCTGATCAGTTCTCCCCTGAGTGTCTTCTTGATTGCCTGGACCTGTCCACGGAGT
upper sequence: GLYMA11G34690.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0019g02710.t01 (Vitis vinifera), 3'ss of exon 5
--------tttctgactcgacagataccctgggatcaccccgaaaaaagaaaaa----catgtactaattttctgtcatgttatgact-ttgtcttgaatatggat--tttgcagAATGGAAGAACTTGCTTGGGGGATTTTGTTTACCGTTACATAACATCAGATCAATTCTCCCCAGAGTGCCTTCTTGATTGCTTAGACATATCCTCTGAAC
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gtatgaagcctcaagcttt-ctgtttttctgcacattcacaaaattatgaattatcatcacacaaagatgagatatggtgtttgaactatttttttatgttttgttcatttgcagAATGGGAGAGCTTGTCTAGGGGACATTATTTATCGGTATATTACATCAGATCAATTCTCCTCAGAGTGCCTGCTTGATTGCCTTGACCTGTCCTCTGAGCMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|8284225|gb|BE021784.1|BE021784EST: CTTTGGCTGAAATGGAAGTTCCTGAGTCATATTTGGAAGTTCTTCCTAAG AATGGAAGAACTTGCTTGGGGGATTTTGTTTACCGTTACATAACATCAGAT
genomic: CTTTGGCTGAAATGGAAGTTCCTGAGTCATATTTGGAAGTTCTTCCTAAGgtctaatcta ... gattttgcagAATGGAAGAACTTGCTTGGGGGATTTTGTTTACCGTTACATAACATCAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatgtactaattttctgtcatgttatgactttgtcttgaatatggattttgcagAATGGAAGAACTTGCTTGGGGGATTTTGTTTACCGTTACATAACATCAGATCAATTCTCCCCAGAGTGCCTTCTTGATTGCTTAGACATATCCTCTGAAC
tactaat putative branch site (score: 1)
tactaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttctgactcgacagataccctgggatcaccccgaaaaaagaaaaacatgtactaattttctgtcatgttatgactttgtcttgaatatggattttgcagAATGGAAGAACTTGCTTGGGGGATTTTGTTTACCGTTACATAACATCAGATCAATTCTCCCCAGAGTGCCTTCTTGATTGCTTAGACATATCCTCTGAAC
- -ctgactc
- - - - - - - - - - - - - tcacccc
- - - - - - - - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - catgtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtcttg