Sequence
atgc intronic sequence ATGC exonic sequencegtttgtcatatgatgcactgaattgtactcctgtggtcatgcatgcactctgtgatgacattattggtcaaatcagGTTTGGGACTACCAAACAAAGAGCTGCGTTCAAACACTTGAAGGACATGCACATAATGTTTCTGCTGTATGTTTCCACCCAGAGCTACCTATAATAATTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G141587_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 3'ss of exon 7
gtttgtcatatgatgcactgaattgtactcctgtggtcatgcatgcactctgtgatgacattattggtcaaatcagGTTTGGGACTACCAAACAAAGAGCTGCGTTCAAACACTTGAAGGACATGCACATAATGTTTCTGCTGTATGTTTCCACCCAGAGCTACCTATAATAATTA
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gtatgccatctg---cagtgaattat---cttgtgagtatat-tggacattgttacgagacacttcgttgaatcagGTTTGGGACTATCAAACGAAGAGCTGTGTTCAAACGCTTGAAGGACATGCACATAATGTCTCTGCTGTTTGTTTCCATCCGGAGTTACCTATAATACTTA
upper sequence: GRMZM2G141587_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT3G15980.3 (Arabidopsis thaliana), 3'ss of exon 7
-----------gtttgtcatatgatgcactgaattgtactcctgtggtcatgcatgcactctgtgatgac--attattggt--caaatcagGTTTGGGACTACCAAACAAAGAGCTGCGTTCAAACACTTGAAGGACATGCACATAATGTTTCTGCTGTATGTTTCCACCCAGAGCTACCTATAATAATTA
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gtatgcttctggttaagcttccaatatctgtgctttgattcccctgagaat-tatgtatttgcagatcgtttactagtggtactttttcagGTATGGGACTATCAAACCAAAAGTTGTGTCCAGACGCTAGATGGGCACACACACAATGTTTCTGCCGTATGTTTCCATCCAGAGCTTCCAATAATAATCA
upper sequence: GRMZM2G141587_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 11
-------------------------------------------------------------------gtttgtcatatgatgcactgaattgtactcctgtggtcatgcatgcactctgtgatgacattattggtcaaatcagGTTTGGGACTACCAAACAAAGAGCTGCGTTCAAACACTTGAAGGACATGCACATAATGTTTCTGCTGTATGTTTCCACCCAGAGCTACCTATAATAATTA
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gtctgtactgagctttcttgcttctttgcaagttgtttgctacatatgtgtgcttgtatgtatctccatttgtattgtt-tgtatataggttcgtgcagggttttctgtttgtatattgttcataaatttcttctggaagcagGTGTGGGATTACCAAACAAAGAGTTGCGTTCAGACTCTCGAAGGTCATACACACAATGTTTCTGCAGTATCTTTTCATCCAGAGCTACCTATAATTATTA
upper sequence: GRMZM2G141587_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 7
-------gtttgtcatatgatgcactgaattgtac---tcctgtggtcatgcatgcactctgtgatgacattattggtcaaat---------cagGTTTGGGACTACCAAACAAAGAGCTGCGTTCAAACACTTGAAGGACATGCACATAATGTTTCTGCTGTATGTTTCCACCCAGAGCTACCTATAATAATTA
||| ||| | | | ||| || ||| ||| ||| || | | | | ||| | || ||| ||||| ||||||||||||||||| || || || || || || || || || |||| ||||| ||||| ||||||||||| |||||||| || || ||||| |
gtatgcctcctgttcaatggtcttttagttgatacatttctactggacat-tatgtgctttcaggttat-ttactagttgaatttcgtgaatcagGTCTGGGACTACCAAACAAAAAGTTGTGTACAGACCCTGGAGGGGCACACACACAATGTATCTGCAGTATGTTTCCATCCAGAGCTTCCAATTATAATCA
upper sequence: GRMZM2G141587_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 7
--gtttgtcatatg---atgcactgaattgtactc--ctgtggtcatgca-------tgcactctgtgatgacattattggtcaaatcagGTTTGGGACTACCAAACAAAGAGCTGCGTTCAAACACTTGAAGGACATGCACATAATGTTTCTGCTGTATGTTTCCACCCAGAGCTACCTATAATAATTA
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gtgtttatctgatgcttattgactaaatagcttccatttatgtgcattccatttgattactttctgtgattaaatt-ttggtggaa-cagGTGTGGGACTACCAAACCAAAAGTTGTGTTCAGACACTAGAAGGCCACACACACAATGTTTCTTCAGTCTGTTTCCATCCAGAGCTTCCTATTATTTTTA
upper sequence: GRMZM2G141587_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S61_1V6.1 (Physcomitrella patens), 3'ss of exon 7
------------------------------------------------------------------------------------------------------------------------gtttgtcatatgatgcactgaattgtactcctgtggtcatgcatgcactctgtgatgacattattggtcaaatcagGTTTGGGACTACCAAACAAAGAGCTGCGTTCAAACACTTGAAGGACATGCACATAATGTTTCTGCTGTATGTTTCCACCCAGAGCTACCTATAATAATTA
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gtaatgactttatcttgtctgttgctaatcttaattctccaggtcaatataactgaaagacttggttctataaggctttcgggatttgcatgagtatcatttttgacatagcatgacttactgtaatccatgttcgattaaat-gtattctgatgtgtagttcagtaacttacaattttttccttg-tcggg-cagGTTTGGGATTATCAGACCAAGAGCTGCGTTCAAACACTGGAAGGACATACTCACAACGTATCTGCAGTGGCATTCCATCCTGACCTGCCAATTATCCTTAMapped 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|60341035|gb|DN208008.1|DN208008EST: GTGGTGACCGACCATACTTAATTACTGGCTCTGATGATCAGACTGCAAAG GTTTGGGACTACCAAACAAAGAGCTGCGTTCAAACACTTGAAGGACATGCA
genomic: GTGGTGACCGACCATACTTAATTACTGGCTCTGATGATCAGACTGCAAAGgtttgtcata ... gtcaaatcagGTTTGGGACTACCAAACAAAGAGCTGCGTTCAAACACTTGAAGGACATGCA
EST:
gi|18963893|gb|BM660689.1|BM660689EST: GTGGTGACCGACCATACTTAATTACTGGCTCTGATGATCAGACTGCAAAG GTTTGGGACTACCAAACAAAGAGCTGCGTTCAAACACTTGAAGGACATGCA
genomic: GTGGTGACCGACCATACTTAATTACTGGCTCTGATGATCAGACTGCAAAGgtttgtcata ... gtcaaatcagGTTTGGGACTACCAAACAAAGAGCTGCGTTCAAACACTTGAAGGACATGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtactcctgtggtcatgcatgcactctgtgatgacattattggtcaaatcagGTTTGGGACTACCAAACAAAGAGCTGCGTTCAAACACTTGAAGGACATGCACATAATGTTTCTGCTGTATGTTTCCACCCAGAGCTACCTATAATAATTA
acattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtcatatgatgcactgaattgtactcctgtggtcatgcatgcactctgtgatgacattattggtcaaatcagGTTTGGGACTACCAAACAAAGAGCTGCGTTCAAACACTTGAAGGACATGCACATAATGTTTCTGCTGTATGTTTCCACCCAGAGCTACCTATAATAATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT